Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 93 of 97
Found at i:36763466 original size:21 final size:21
Alignment explanation
Indices: 36763440--36763480 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
36763430 AAACTGAAAA
36763440 TTTTCTTCTCATTTTC-GTTTC
1 TTTTCTTCT-ATTTTCTGTTTC
36763461 TTTTCTTCTATTTTCTGTTT
1 TTTTCTTCTATTTTCTGTTT
36763481 GTATATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.05, C:0.20, G:0.05, T:0.71
Consensus pattern (21 bp):
TTTTCTTCTATTTTCTGTTTC
Found at i:36772353 original size:49 final size:49
Alignment explanation
Indices: 36772298--36772393 Score: 192
Period size: 49 Copynumber: 2.0 Consensus size: 49
36772288 TCTCCTCATA
36772298 CTAGATCTCAGGTTCTGCAAAACTGTCTTTGCACTCTTTCCTTACAAAC
1 CTAGATCTCAGGTTCTGCAAAACTGTCTTTGCACTCTTTCCTTACAAAC
36772347 CTAGATCTCAGGTTCTGCAAAACTGTCTTTGCACTCTTTCCTTACAA
1 CTAGATCTCAGGTTCTGCAAAACTGTCTTTGCACTCTTTCCTTACAA
36772394 GCCTGCCAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.24, C:0.28, G:0.12, T:0.35
Consensus pattern (49 bp):
CTAGATCTCAGGTTCTGCAAAACTGTCTTTGCACTCTTTCCTTACAAAC
Found at i:36772718 original size:17 final size:18
Alignment explanation
Indices: 36772687--36772721 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
36772677 GATTTTGTAA
36772687 TATTTTTCATATAATTTT
1 TATTTTTCATATAATTTT
*
36772705 TATTTTTTAT-TAATTTT
1 TATTTTTCATATAATTTT
36772722 AAAATTTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (18 bp):
TATTTTTCATATAATTTT
Found at i:36782183 original size:35 final size:36
Alignment explanation
Indices: 36782144--36782247 Score: 85
Period size: 35 Copynumber: 2.9 Consensus size: 36
36782134 AATGAGATTT
36782144 TTAATATTTATTTTAATTAATATATAATTTAAT-AA
1 TTAATATTTATTTTAATTAATATATAATTTAATAAA
* * *
36782179 TTAATA--AATTATTCATTAAATATATAATTTATCTAAA
1 TTAATATTTATT-TTAATT-AATATATAATTTA-ATAAA
*
36782216 TATAAAATTTATTTTAAATT--TAT-TAATTTAAT
1 T-TAATATTTATTTT-AATTAATATATAATTTAAT
36782248 TTTAATTAAT
Statistics
Matches: 54, Mismatches: 7, Indels: 16
0.70 0.09 0.21
Matches are distributed among these distances:
33 3 0.06
34 5 0.09
35 20 0.37
36 8 0.15
37 6 0.11
38 4 0.07
39 2 0.04
40 6 0.11
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (36 bp):
TTAATATTTATTTTAATTAATATATAATTTAATAAA
Found at i:36782217 original size:17 final size:17
Alignment explanation
Indices: 36782195--36782227 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
36782185 AATTATTCAT
*
36782195 TAAATATATAATTTATC
1 TAAATATAAAATTTATC
36782212 TAAATATAAAATTTAT
1 TAAATATAAAATTTAT
36782228 TTTAAATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATATAAAATTTATC
Found at i:36790510 original size:20 final size:20
Alignment explanation
Indices: 36790485--36790526 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
36790475 TAAGGCGAGT
36790485 CAACGTATATGGACAAGTAA
1 CAACGTATATGGACAAGTAA
36790505 CAACGTATATGGACAAGTAA
1 CAACGTATATGGACAAGTAA
36790525 CA
1 CA
36790527 TGACTCATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.17, G:0.19, T:0.19
Consensus pattern (20 bp):
CAACGTATATGGACAAGTAA
Found at i:36799999 original size:71 final size:70
Alignment explanation
Indices: 36799881--36800018 Score: 215
Period size: 71 Copynumber: 2.0 Consensus size: 70
36799871 CCTTTTGTAT
36799881 CATATTACACAGGTTGAGTTTGGAAGACTTTAGTCAATCAATACCTCAATTGTTCATATTTTCCC
1 CATATTACACAGGTTGAGTTTGGAAGACTTTAGTCAATCAATACCTCAATTGTTCA-ATTTTCCC
36799946 TAACAC
65 TAACAC
* * * *
36799952 CATATTACAC-GGATTGAGTTTGGAAGACTTTATTCAATCAGTGCCTCAATTGTTCAGTTTTCCC
1 CATATTACACAGG-TTGAGTTTGGAAGACTTTAGTCAATCAATACCTCAATTGTTCAATTTTCCC
36800016 TAA
65 TAA
36800019 AGTGTAGGGT
Statistics
Matches: 62, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
70 12 0.19
71 50 0.81
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.36
Consensus pattern (70 bp):
CATATTACACAGGTTGAGTTTGGAAGACTTTAGTCAATCAATACCTCAATTGTTCAATTTTCCCT
AACAC
Found at i:36800720 original size:19 final size:19
Alignment explanation
Indices: 36800696--36800733 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
36800686 TTTCTCTTAT
36800696 ATAATCAAGATTAATAAAA
1 ATAATCAAGATTAATAAAA
36800715 ATAATCAAGATTAATAAAA
1 ATAATCAAGATTAATAAAA
36800734 TATTTATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.26
Consensus pattern (19 bp):
ATAATCAAGATTAATAAAA
Found at i:36801191 original size:14 final size:15
Alignment explanation
Indices: 36801174--36801202 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
36801164 AGTAAAAATA
36801174 AAAGA-AAAAAAAAG
1 AAAGAGAAAAAAAAG
36801188 AAAGAGAAAAAAAAG
1 AAAGAGAAAAAAAAG
36801203 TGTGGAGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAGAGAAAAAAAAG
Found at i:36801195 original size:16 final size:15
Alignment explanation
Indices: 36801167--36801201 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
36801157 ATAGAAAAGT
*
36801167 AAAAATAAAAGAAAA
1 AAAAAGAAAAGAAAA
36801182 AAAAAGAAAGAGAAAA
1 AAAAAGAAA-AGAAAA
36801198 AAAA
1 AAAA
36801202 GTGTGGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (15 bp):
AAAAAGAAAAGAAAA
Found at i:36807230 original size:24 final size:25
Alignment explanation
Indices: 36807203--36807250 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
36807193 AAAAATTCAT
36807203 TATTAAT-ATATGTTTT-AAATATAA
1 TATTAATGATAT-TTTTAAAATATAA
*
36807227 TATTATTGATATTTTTAAAATATA
1 TATTAATGATATTTTTAAAATATA
36807251 CCTAAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (25 bp):
TATTAATGATATTTTTAAAATATAA
Found at i:36847099 original size:21 final size:21
Alignment explanation
Indices: 36847059--36847100 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
36847049 CTAATTTTTT
*
36847059 AAAAGTTTTTTCTTATATTTA
1 AAAAGTTTTTTCTTAAATTTA
36847080 AAAAGTTATTTTC-TAAATTTA
1 AAAAGTT-TTTTCTTAAATTTA
36847101 TGTTTAACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (21 bp):
AAAAGTTTTTTCTTAAATTTA
Found at i:36847390 original size:2 final size:2
Alignment explanation
Indices: 36847374--36847413 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
36847364 AAATGGAGTA
*
36847374 TC TC -C TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
36847414 ATTCTTGAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:36860621 original size:47 final size:47
Alignment explanation
Indices: 36860551--36860919 Score: 384
Period size: 47 Copynumber: 7.9 Consensus size: 47
36860541 TGTGACACGG
* * * * *
36860551 CTGTGACACGCCAGCGCTT-AGAGTTGGTGAGATGCAATGGAGGGAAT
1 CTGTGACACGTCAGAG-TTCAGAGTTGGTGACACGCCATGGAGGGAAT
* * * * *
36860598 CTGTGACACG-CTAGAGTTAAGAGTTAGTAACACGCCATAGTGGGAAT
1 CTGTGACACGTC-AGAGTTCAGAGTTGGTGACACGCCATGGAGGGAAT
* * * *
36860645 CTGTGACACGTCAGCGTTTAGAGTTGGTGAGACGTCATGGAGGGAAT
1 CTGTGACACGTCAGAGTTCAGAGTTGGTGACACGCCATGGAGGGAAT
* * * *
36860692 CTGTGATACGTCAGAGTTAAGAGTTGGTGACACGACATGGAGCGAAT
1 CTGTGACACGTCAGAGTTCAGAGTTGGTGACACGCCATGGAGGGAAT
* * ** * *
36860739 CTGTGACACGTTAGCGTTCAGAGTTCATGAGACACCATGGAGGGAAT
1 CTGTGACACGTCAGAGTTCAGAGTTGGTGACACGCCATGGAGGGAAT
* *
36860786 CTGTGACACG-CTAGAGTTCAGAGTTGGTGACACACCATAGAGGGAAT
1 CTGTGACACGTC-AGAGTTCAGAGTTGGTGACACGCCATGGAGGGAAT
* * ** * *
36860833 TTGTGACACGTCAGAGTTCAGAGTTGGTGACATGTTATGGAAGGAAG
1 CTGTGACACGTCAGAGTTCAGAGTTGGTGACACGCCATGGAGGGAAT
* *
36860880 CTATGACATGTCAGAGTTCAGAGTTGGTGACACGCCATGG
1 CTGTGACACGTCAGAGTTCAGAGTTGGTGACACGCCATGG
36860920 TCATGGTTTA
Statistics
Matches: 265, Mismatches: 52, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
46 3 0.01
47 260 0.98
48 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.24
Consensus pattern (47 bp):
CTGTGACACGTCAGAGTTCAGAGTTGGTGACACGCCATGGAGGGAAT
Found at i:36860712 original size:94 final size:94
Alignment explanation
Indices: 36860551--36860917 Score: 427
Period size: 94 Copynumber: 3.9 Consensus size: 94
36860541 TGTGACACGG
* *
36860551 CTGTGACACGCCAGCGCTT-AGAGTTGGTGAGATG-CAATGGAGGGAATCTGTGACACGCTAGAG
1 CTGTGACACGTCAGCG-TTCAGAGTTGGTGAGACGTC-ATGGAGGGAATCTGTGACACGCTAGAG
* * *
36860614 TTAAGAGTTAGTAACACGCCATAGTGGGAAT
64 TTAAGAGTTGGTGACACGCCATAGAGGGAAT
* *
36860645 CTGTGACACGTCAGCGTTTAGAGTTGGTGAGACGTCATGGAGGGAATCTGTGATACG-TCAGAGT
1 CTGTGACACGTCAGCGTTCAGAGTTGGTGAGACGTCATGGAGGGAATCTGTGACACGCT-AGAGT
* * *
36860709 TAAGAGTTGGTGACACGACATGGAGCGAAT
65 TAAGAGTTGGTGACACGCCATAGAGGGAAT
* ** **
36860739 CTGTGACACGTTAGCGTTCAGAGTTCATGAGACACCATGGAGGGAATCTGTGACACGCTAGAGTT
1 CTGTGACACGTCAGCGTTCAGAGTTGGTGAGACGTCATGGAGGGAATCTGTGACACGCTAGAGTT
* *
36860804 CAGAGTTGGTGACACACCATAGAGGGAAT
66 AAGAGTTGGTGACACGCCATAGAGGGAAT
* * * * * * * * *
36860833 TTGTGACACGTCAGAGTTCAGAGTTGGTGACATGTTATGGAAGGAAGCTATGACATG-TCAGAGT
1 CTGTGACACGTCAGCGTTCAGAGTTGGTGAGACGTCATGGAGGGAATCTGTGACACGCT-AGAGT
*
36860897 TCAGAGTTGGTGACACGCCAT
65 TAAGAGTTGGTGACACGCCAT
36860918 GGTCATGGTT
Statistics
Matches: 232, Mismatches: 36, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
93 4 0.02
94 226 0.97
95 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.32, T:0.24
Consensus pattern (94 bp):
CTGTGACACGTCAGCGTTCAGAGTTGGTGAGACGTCATGGAGGGAATCTGTGACACGCTAGAGTT
AAGAGTTGGTGACACGCCATAGAGGGAAT
Found at i:36860968 original size:53 final size:53
Alignment explanation
Indices: 36860907--36861026 Score: 188
Period size: 53 Copynumber: 2.3 Consensus size: 53
36860897 TCAGAGTTGG
*
36860907 TGACACGCCATGGTCATGGTTTAAAGTGTGTGACA-TGACATTGCTTGAAAAGC
1 TGACACGCCATGGTCATGGTTTAAAGTGTGTGACACT-ACAGTGCTTGAAAAGC
* *
36860960 TGACACGCCATGGTCATGGTTTAGAGTGTGTGACACTACAGTGCTTGAACAGC
1 TGACACGCCATGGTCATGGTTTAAAGTGTGTGACACTACAGTGCTTGAAAAGC
*
36861013 TGACACGTCATGGT
1 TGACACGCCATGGT
36861027 TTGAAATAGA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
53 61 0.98
54 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (53 bp):
TGACACGCCATGGTCATGGTTTAAAGTGTGTGACACTACAGTGCTTGAAAAGC
Found at i:36861556 original size:31 final size:31
Alignment explanation
Indices: 36861518--36861678 Score: 178
Period size: 31 Copynumber: 5.0 Consensus size: 31
36861508 TTAGCATGTG
* * *
36861518 ACAACATTTGATTTGATATGCATGACGTGTC
1 ACAACATTTTACTTGATATGCATGGCGTGTC
*
36861549 ACAACATTTTACTTGATATGCATGGCGTGTG
1 ACAACATTTTACTTGATATGCATGGCGTGTC
*
36861580 ACAACATTTTACTTGATACTTGATATGCATGGCGTGTG
1 ACAACA---T--TT--TACTTGATATGCATGGCGTGTC
* *
36861618 ACAACATTTTACTTGTTATGCATGGTGTGTC
1 ACAACATTTTACTTGATATGCATGGCGTGTC
* *
36861649 ACAACATTTTACTTGTTATGCATGACGTGT
1 ACAACATTTTACTTGATATGCATGGCGTGT
36861679 GCATGGCGTG
Statistics
Matches: 114, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
31 80 0.70
33 2 0.02
34 1 0.01
35 1 0.01
36 2 0.02
38 28 0.25
ACGTcount: A:0.26, C:0.16, G:0.20, T:0.38
Consensus pattern (31 bp):
ACAACATTTTACTTGATATGCATGGCGTGTC
Found at i:36861600 original size:38 final size:38
Alignment explanation
Indices: 36861558--36861632 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
36861548 CACAACATTT
36861558 TACTTGATATGCATGGCGTGTGACAACATTTTACTTGA
1 TACTTGATATGCATGGCGTGTGACAACATTTTACTTGA
36861596 TACTTGATATGCATGGCGTGTGACAACATTTTACTTG
1 TACTTGATATGCATGGCGTGTGACAACATTTTACTTG
36861633 TTATGCATGG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.37
Consensus pattern (38 bp):
TACTTGATATGCATGGCGTGTGACAACATTTTACTTGA
Found at i:36861616 original size:69 final size:68
Alignment explanation
Indices: 36861525--36861792 Score: 289
Period size: 69 Copynumber: 4.0 Consensus size: 68
36861515 GTGACAACAT
* * *
36861525 TTGAT-TTGATATGCATGACGTGTCACAACATTTTACTTGATATGCATGGCGTGTGACAACATTT
1 TTGATCTTGATATGCATGGCGTGTCACAACATTTTACTTGTTATGCATGGCGTGTCACAACATTT
36861589 TAC
66 TAC
* *
36861592 TTGATACTTGATATGCATGGCGTGTGACAACATTTTACTTGTTATGCATGGTGTGTCACAACATT
1 TTGAT-CTTGATATGCATGGCGTGTCACAACATTTTACTTGTTATGCATGGCGTGTCACAACATT
36861657 TTAC
65 TTAC
* * * * *
36861661 TTGTTATGCATGACGTGTGCATGGCGTGTCACAACATTTAACTTGTTATGCATGCCATGTCACAA
1 TTG--AT-CTTGA--TATGCATGGCGTGTCACAACATTTTACTTGTTATGCATGGCGTGTCACAA
*
36861726 TATTTTAC
61 CATTTTAC
* * * * *
36861734 TTG----T--TATGCATGGTGTATCACAACATTTTGCTTGCTATGCATGGGGTGTCACAACATTT
1 TTGATCTTGATATGCATGGCGTGTCACAACATTTTACTTGTTATGCATGGCGTGTCACAACATTT
36861793 ATTCCTTATT
Statistics
Matches: 171, Mismatches: 24, Indels: 17
0.81 0.11 0.08
Matches are distributed among these distances:
62 45 0.26
66 1 0.01
67 5 0.03
69 60 0.35
71 6 0.04
73 54 0.32
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (68 bp):
TTGATCTTGATATGCATGGCGTGTCACAACATTTTACTTGTTATGCATGGCGTGTCACAACATTT
TAC
Found at i:36861705 original size:73 final size:71
Alignment explanation
Indices: 36861531--36861745 Score: 290
Period size: 73 Copynumber: 3.0 Consensus size: 71
36861521 ACATTTGATT
* * *
36861531 TGATATGCATGACGTGTCACAACATTTTACTTGATATGCATGGCGTGTGACAACATTTTACTTG-
1 TGATATGCATGGCGTGTCACAACATTTTACTTGTTATGCATGGCGTGTCACAACATTTTACTTGT
* *
36861595 -ATACT
66 TATGCA
* *
36861600 TGATATGCATGGCGTGTGACAACATTTTACTTGTTATGCATGGTGTGTCACAACATTTTACTTGT
1 TGATATGCATGGCGTGTCACAACATTTTACTTGTTATGCATGGCGTGTCACAACATTTTACTTGT
36861665 TATGCA
66 TATGCA
* * * * *
36861671 TGACGTGTGCATGGCGTGTCACAACATTTAACTTGTTATGCATGCCATGTCACAATATTTTACTT
1 TGA--TATGCATGGCGTGTCACAACATTTTACTTGTTATGCATGGCGTGTCACAACATTTTACTT
36861736 GTTATGCA
64 GTTATGCA
36861744 TG
1 TG
36861746 GTGTATCACA
Statistics
Matches: 128, Mismatches: 14, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
69 59 0.46
71 6 0.05
73 63 0.49
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (71 bp):
TGATATGCATGGCGTGTCACAACATTTTACTTGTTATGCATGGCGTGTCACAACATTTTACTTGT
TATGCA
Found at i:36861722 original size:31 final size:31
Alignment explanation
Indices: 36861678--36861793 Score: 142
Period size: 31 Copynumber: 3.7 Consensus size: 31
36861668 GCATGACGTG
36861678 TGCATGGCGTGTCACAACATTTAACTTGTTA
1 TGCATGGCGTGTCACAACATTTAACTTGTTA
* * * *
36861709 TGCATGCCATGTCACAATATTTTACTTGTTA
1 TGCATGGCGTGTCACAACATTTAACTTGTTA
* * ** *
36861740 TGCATGGTGTATCACAACATTTTGCTTGCTA
1 TGCATGGCGTGTCACAACATTTAACTTGTTA
*
36861771 TGCATGGGGTGTCACAACATTTA
1 TGCATGGCGTGTCACAACATTTA
36861794 TTCCTTATTT
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 71 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (31 bp):
TGCATGGCGTGTCACAACATTTAACTTGTTA
Found at i:36861804 original size:104 final size:104
Alignment explanation
Indices: 36861512--36861804 Score: 258
Period size: 104 Copynumber: 2.9 Consensus size: 104
36861502 TCAGCTTTAG
* * * * ** *
36861512 CATGTGACAACATTTGATTTGATATGCATGACGTGTCACAACATTTTACTTGATATGCATGGCGT
1 CATGTCACAACATTTTACTTGTTATGCATGGTGTATCACAACATTTTACTTGATATGCATGGCGT
* * *
36861577 GTGACAACA-TT-TTACTTGA--T-ACTTGATATGCATGG
66 GTCACAACATTTATTCCTT-ATTTAACTTGATATGCATGC
* * * * *
36861612 CGTGTGACAACATTTTACTTGTTATGCATGGTGTGTCACAACATTTTACTTGTTATGCATGACGT
1 CATGTCACAACATTTTACTTGTTATGCATGGTGTATCACAACATTTTACTTGATATGCATGGCGT
*** * * *** *
36861677 GTGCATGGCGTGTCA--CAACATTTAACTTGTTATGCATGC
66 GT-CACAACAT-TTATTCCTTATTTAACTTGATATGCATGC
* * * *
36861716 CATGTCACAATATTTTACTTGTTATGCATGGTGTATCACAACATTTTGCTTGCTATGCATGGGGT
1 CATGTCACAACATTTTACTTGTTATGCATGGTGTATCACAACATTTTACTTGATATGCATGGCGT
36861781 GTCACAACATTTATTCCTTATTTA
66 GTCACAACATTTATTCCTTATTTA
36861805 TGTCTTCAGT
Statistics
Matches: 148, Mismatches: 36, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
100 59 0.40
101 3 0.02
102 2 0.01
103 6 0.04
104 78 0.53
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.38
Consensus pattern (104 bp):
CATGTCACAACATTTTACTTGTTATGCATGGTGTATCACAACATTTTACTTGATATGCATGGCGT
GTCACAACATTTATTCCTTATTTAACTTGATATGCATGC
Found at i:36864346 original size:31 final size:31
Alignment explanation
Indices: 36864113--36864349 Score: 233
Period size: 31 Copynumber: 7.6 Consensus size: 31
36864103 GTCAGCCTTA
* *
36864113 GCGTGTGACAACATTTGACTTGATATGCATG
1 GCGTGTCACAACATTTTACTTGATATGCATG
* * * * *
36864144 ACATGTAAGAACATTTTACTTGCTATGCATG
1 GCGTGTCACAACATTTTACTTGATATGCATG
** * *
36864175 GCGTGTCACAATGTTTGATTTGATATGCATG
1 GCGTGTCACAACATTTTACTTGATATGCATG
* ** * * * *
36864206 GCGTGTCAGAACATTTCGCTTGTTATCCTTA
1 GCGTGTCACAACATTTTACTTGATATGCATG
* *
36864237 GCGTGTCACAACAATTTGCTT-ATTATGCATG
1 GCGTGTCACAACATTTTACTTGA-TATGCATG
*
36864268 GCGTGTCACAACATTTTACTTGTTATGCATG
1 GCGTGTCACAACATTTTACTTGATATGCATG
* *
36864299 GCGTGTCACAACATTTTAGTTGATATGCATA
1 GCGTGTCACAACATTTTACTTGATATGCATG
* *
36864330 GCCTGTTACAACATTTTACT
1 GCGTGTCACAACATTTTACT
36864350 GGTTATGGTT
Statistics
Matches: 163, Mismatches: 41, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
31 163 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (31 bp):
GCGTGTCACAACATTTTACTTGATATGCATG
Found at i:36865959 original size:47 final size:48
Alignment explanation
Indices: 36865888--36866011 Score: 135
Period size: 47 Copynumber: 2.5 Consensus size: 48
36865878 GTTTGTACAT
* *
36865888 TTTTTTGTATACA-AAATTATTTTTAGACAATTAATTTTATAC-ATAAA
1 TTTTTTGTATACACAATTTA-TTTTAGACAATTAATTGTATACAATAAA
* * *
36865935 TTTTTTGTATACACAATTTATTTTATACAATTCATTGTATACAGAATTAA
1 TTTTTTGTATACACAATTTATTTTAGACAATTAATTGTATAC--AATAAA
*
36865985 TTCTTTCTGTATACACAATATATTTTA
1 TT-TTT-TGTATACACAATTTATTTTA
36866012 TACATAATTA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
47 32 0.49
48 5 0.08
50 6 0.09
51 3 0.05
52 19 0.29
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (48 bp):
TTTTTTGTATACACAATTTATTTTAGACAATTAATTGTATACAATAAA
Found at i:36865961 original size:16 final size:16
Alignment explanation
Indices: 36865895--36865963 Score: 63
Period size: 16 Copynumber: 4.4 Consensus size: 16
36865885 CATTTTTTTG
*
36865895 TATACA-AAATTATTT
1 TATACACAATTTATTT
* *
36865910 T-TAGACAATTAATTT
1 TATACACAATTTATTT
*
36865925 TATACATAAATTT-TTT
1 TATACA-CAATTTATTT
36865941 GTATACACAATTTATTT
1 -TATACACAATTTATTT
36865958 TATACA
1 TATACA
36865964 ATTCATTGTA
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
14 3 0.07
15 9 0.21
16 17 0.40
17 13 0.31
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.48
Consensus pattern (16 bp):
TATACACAATTTATTT
Found at i:36867610 original size:31 final size:31
Alignment explanation
Indices: 36867565--36867977 Score: 466
Period size: 31 Copynumber: 13.3 Consensus size: 31
36867555 TTAGCATGTG
*
36867565 ACAACATTTTACTTGTTACGCATGGCGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* *
36867596 ACAACGTTTAACTTGTTATGCATGGCGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* * *
36867627 AAAACAATTTACTTGTTATGCATGGCTTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* * * * *
36867658 AGAACAATTTATTTGTTATCCATGGCATGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* * *
36867689 AGAACATTTTGCTTGTTATGCACGGCGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* * * *
36867720 AGAACAATTGACCTGTTATGCATGGCGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* * *
36867751 AAAAAAATTTACTTGTTATGCATGGCGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* * *
36867782 ACAACAATTTAATTTGTTATGCATGGCGTGTT
1 ACAAC-ATTTTACTTGTTATGCATGGCGTGTC
* * *
36867814 AGAACATTTTGCTTGTTATGCATGGCATGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* *
36867845 ACAACATTTTGCTTGTTATGCATGACGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* * *
36867876 AGAATATTTTGCTTGTTATGCATGGCGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* * * *
36867907 ACAATATTTTACTTGATATGCACGGCGTATC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
* * *
36867938 ACAAGATTTTACTTGTTTTGCATGACGTGTC
1 ACAACATTTTACTTGTTATGCATGGCGTGTC
36867969 ACAACATTT
1 ACAACATTT
36867978 ATTTCTTATT
Statistics
Matches: 324, Mismatches: 57, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
31 298 0.92
32 26 0.08
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.37
Consensus pattern (31 bp):
ACAACATTTTACTTGTTATGCATGGCGTGTC
Found at i:36868920 original size:31 final size:31
Alignment explanation
Indices: 36868885--36869032 Score: 206
Period size: 31 Copynumber: 4.8 Consensus size: 31
36868875 AGACTACAAG
* *
36868885 AAGTCAGCGTGTAACGTCATAAGTCTGCATT
1 AAGTCAGCGTGTCACGCCATAAGTCTGCATT
*
36868916 AAGTCAGCGTGTCATGCCATAAGTCTGCATT
1 AAGTCAGCGTGTCACGCCATAAGTCTGCATT
*
36868947 AAGTCAGCGTGTCATGCCATAAGTCTGCATT
1 AAGTCAGCGTGTCACGCCATAAGTCTGCATT
* * *
36868978 AAGTAAGCGTGTCACTCCATAAGTCTGAATT
1 AAGTCAGCGTGTCACGCCATAAGTCTGCATT
* * *
36869009 AACTCAGCGTGTCATGCTATAAGT
1 AAGTCAGCGTGTCACGCCATAAGT
36869033 ATGCTTCTAC
Statistics
Matches: 105, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 105 1.00
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (31 bp):
AAGTCAGCGTGTCACGCCATAAGTCTGCATT
Found at i:36869051 original size:93 final size:93
Alignment explanation
Indices: 36868885--36869053 Score: 225
Period size: 93 Copynumber: 1.8 Consensus size: 93
36868875 AGACTACAAG
* * * * *
36868885 AAGTCAGCGTGTAACGTCATAAGTCTGCATTAAGTCAGCGTGTCATGCCATAAGTCTGCATTAAG
1 AAGTAAGCGTGTAACGTCATAAGTCTGAATTAACTCAGCGTGTCATGCCATAAGTATGCATTAAC
*
36868950 TCAGCGTGTCATGCCATAAGTCTGCATT
66 TCAACGTGTCATGCCATAAGTCTGCATT
* * *
36868978 AAGTAAGCGTGTCAC-TCCATAAGTCTGAATTAACTCAGCGTGTCATGCTATAAGTATGC-TTCT
1 AAGTAAGCGTGTAACGT-CATAAGTCTGAATTAACTCAGCGTGTCATGCCATAAGTATGCATT-A
36869041 ACTCAACGTGTCA
64 ACTCAACGTGTCA
36869054 CCATAATTGG
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
92 3 0.05
93 62 0.95
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (93 bp):
AAGTAAGCGTGTAACGTCATAAGTCTGAATTAACTCAGCGTGTCATGCCATAAGTATGCATTAAC
TCAACGTGTCATGCCATAAGTCTGCATT
Found at i:36872893 original size:23 final size:23
Alignment explanation
Indices: 36872860--36872915 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
36872850 TCAAATATAC
* * *
36872860 TGACACACCATGCATTAGTATCG
1 TGACACGCCATGCATCAGTATCA
*
36872883 TGACACGCCATGCATCATTATCA
1 TGACACGCCATGCATCAGTATCA
36872906 TGACACGCCA
1 TGACACGCCA
36872916 ATCACTGTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.23
Consensus pattern (23 bp):
TGACACGCCATGCATCAGTATCA
Found at i:36873041 original size:55 final size:55
Alignment explanation
Indices: 36872944--36873121 Score: 185
Period size: 55 Copynumber: 3.2 Consensus size: 55
36872934 TCGTTACATC
* * * ** * *
36872944 AACAGTCGTGACACACTAAAAACCTAAAAAACCAGTTTACCCACAACATGCCAGG
1 AACAGCCGTGACACGCCAAAAACAAAAAAAACTAGTTAACCCACAACATGCCAGG
* ** * **
36872999 AAGAGCCGTGACACGCCAAAAACCCATAAATTTAGTTAACCCACAACATGCCAGG
1 AACAGCCGTGACACGCCAAAAACAAAAAAAACTAGTTAACCCACAACATGCCAGG
* * * * *
36873054 AACAGCCGTGACATGCTAACAATAAAAAAAACTAGTTAACCCACAACACGCCAGG
1 AACAGCCGTGACACGCCAAAAACAAAAAAAACTAGTTAACCCACAACATGCCAGG
*
36873109 AATAGCCGTGACA
1 AACAGCCGTGACA
36873122 TGCTAAAATA
Statistics
Matches: 101, Mismatches: 22, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 101 1.00
ACGTcount: A:0.43, C:0.28, G:0.15, T:0.14
Consensus pattern (55 bp):
AACAGCCGTGACACGCCAAAAACAAAAAAAACTAGTTAACCCACAACATGCCAGG
Found at i:36873122 original size:55 final size:54
Alignment explanation
Indices: 36872969--36873132 Score: 195
Period size: 55 Copynumber: 3.0 Consensus size: 54
36872959 CTAAAAACCT
* * * * * *
36872969 AAAAAACCAGTTTACCCACAACATGCCAGGAAGAGCCGTGACACGCCAAAA-ACCC
1 AAAAAACTAGTTAACCCACAACATGCCAGGAACAGCCGTGACATGCTAAAATA--A
* **
36873024 ATAAATTTAGTTAACCCACAACATGCCAGGAACAGCCGTGACATGCTAACAATAA
1 AAAAAACTAGTTAACCCACAACATGCCAGGAACAGCCGTGACATGCTAA-AATAA
* *
36873079 AAAAAACTAGTTAACCCACAACACGCCAGGAATAGCCGTGACATGCTAAAATAA
1 AAAAAACTAGTTAACCCACAACATGCCAGGAACAGCCGTGACATGCTAAAATAA
36873133 CGCTAACACA
Statistics
Matches: 93, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
54 5 0.05
55 85 0.91
56 2 0.02
57 1 0.01
ACGTcount: A:0.43, C:0.27, G:0.15, T:0.15
Consensus pattern (54 bp):
AAAAAACTAGTTAACCCACAACATGCCAGGAACAGCCGTGACATGCTAAAATAA
Found at i:36876756 original size:220 final size:219
Alignment explanation
Indices: 36876359--36876769 Score: 594
Period size: 219 Copynumber: 1.9 Consensus size: 219
36876349 CCCGGAGAGT
* * * * * *
36876359 TTCCTTACTTGACACTTGGTAAAGTTATAGAGAAAGCCCCAGCCTCAAGCCACGTTGCTTTGAGC
1 TTCCTTACTTGACACTCGGGAAAGTCATAGAGAAAGCCCCAGCCACAAGCCACATTGCTTTAAGC
* * *
36876424 CACCAACTCCGTTCCCACCCCACTTCGAAAACTAAATGCCTGGTCTATATCTCATATTTCATACA
66 CACCAACTCAGTTCCCACCCCACCTAGAAAACTAAATGCCTGGTCTATATCTCATATTTCATACA
* * *
36876489 CTTGGCACCTTTGAAAAGCCGGCCTTGCAAGACAAAAGTTTCTGACTAATCTATAATCTATAACT
131 CTTGGCACCTATGAAAAGCCGACCTAGCAAGACAAAAGTTTCTGACTAATCTATAATCTATAACT
36876554 ATATTTAAAGAAAACTCCAAGGCC
196 ATATTTAAAGAAAACTCCAAGGCC
*
36876578 TTCCTTACTTGACACTCGGCGAAA-TCATAGAGAAAGCCCCAGCCACAGGCCACATTGCTTTAAG
1 TTCCTTACTTGACACTCGG-GAAAGTCATAGAGAAAGCCCCAGCCACAAGCCACATTGCTTTAAG
*
36876642 CCACCAACTCAGTTCCCACCTCACCTAGAAAACCT-AATGCCTGGGTC-AGTATCTCATATTTCA
65 CCACCAACTCAGTTCCCACCCCACCTAGAAAA-CTAAATGCCT-GGTCTA-TATCTCATATTTCA
** ** *
36876705 TACACTTGGTGCCTATGAAAAGCTTACCTAGCAAGACAAAAGTTTCTGACTAATTTATAATCTAT
127 TACACTTGGCACCTATGAAAAGCCGACCTAGCAAGACAAAAGTTTCTGACTAATCTATAATCTAT
36876770 CTATCAATAA
Statistics
Matches: 169, Mismatches: 19, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
219 89 0.53
220 80 0.47
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.27
Consensus pattern (219 bp):
TTCCTTACTTGACACTCGGGAAAGTCATAGAGAAAGCCCCAGCCACAAGCCACATTGCTTTAAGC
CACCAACTCAGTTCCCACCCCACCTAGAAAACTAAATGCCTGGTCTATATCTCATATTTCATACA
CTTGGCACCTATGAAAAGCCGACCTAGCAAGACAAAAGTTTCTGACTAATCTATAATCTATAACT
ATATTTAAAGAAAACTCCAAGGCC
Found at i:36876911 original size:28 final size:31
Alignment explanation
Indices: 36876851--36876909 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
36876841 TATATATATA
* *
36876851 TATATTTTAATAATTATTATTAAATATCAAAT
1 TATATTTTAATAAATATTA-TAAATAACAAAT
36876883 TATA-TTTAATAAATATTA-AAATAACAA
1 TATATTTTAATAAATATTATAAATAACAA
36876910 TTGAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 8 0.32
31 13 0.52
32 4 0.16
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (31 bp):
TATATTTTAATAAATATTATAAATAACAAAT
Found at i:36877746 original size:33 final size:33
Alignment explanation
Indices: 36877665--36877758 Score: 91
Period size: 33 Copynumber: 2.8 Consensus size: 33
36877655 CAAAAAAATT
* *
36877665 AAAATAAAATATATAATATAGAAAATTACATTAA
1 AAAATAAAA-ATAAAATATAGAAAATTACAATAA
* * * * * *
36877699 GAAATGAAAGTAAAATATATAAGATTATAATAA
1 AAAATAAAAATAAAATATAGAAAATTACAATAA
36877732 AAAATAAAAATAAAATATA-AAACATTA
1 AAAATAAAAATAAAATATAGAAA-ATTA
36877759 AAAATATATT
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
32 2 0.04
33 38 0.81
34 7 0.15
ACGTcount: A:0.66, C:0.02, G:0.05, T:0.27
Consensus pattern (33 bp):
AAAATAAAAATAAAATATAGAAAATTACAATAA
Found at i:36880211 original size:14 final size:14
Alignment explanation
Indices: 36880192--36880221 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
36880182 AAGCCTACTG
36880192 TAGAGCTACATGTA
1 TAGAGCTACATGTA
36880206 TAGAGCTACATGTA
1 TAGAGCTACATGTA
36880220 TA
1 TA
36880222 AAGTTGACAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (14 bp):
TAGAGCTACATGTA
Found at i:36907267 original size:4 final size:4
Alignment explanation
Indices: 36907258--36907296 Score: 53
Period size: 4 Copynumber: 9.5 Consensus size: 4
36907248 TGTCTGTTGG
36907258 AAAT AAAT AAAT AAAATT AAA- AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT -AAA-T AAAT AAAT AAAT AAAT AAAT AA
36907297 GAAAAAAAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
3 3 0.09
4 22 0.69
5 6 0.19
6 1 0.03
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:36907301 original size:21 final size:21
Alignment explanation
Indices: 36907258--36907302 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
36907248 TGTCTGTTGG
*
36907258 AAATAAATAAATAAAATTAAA
1 AAATAAATAAATAAAATAAAA
36907279 AAATAAATAAAT-AAATAAGAA
1 AAATAAATAAATAAAATAA-AA
36907300 AAA
1 AAA
36907303 AAGTTACGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (21 bp):
AAATAAATAAATAAAATAAAA
Found at i:36932156 original size:13 final size:13
Alignment explanation
Indices: 36932125--36932163 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
36932115 ATAATTATAT
*
36932125 TATTAT-TTATTA
1 TATTATGTTAATA
*
36932137 TAATATGTTAATA
1 TATTATGTTAATA
36932150 TATTATGTTAATA
1 TATTATGTTAATA
36932163 T
1 T
36932164 TTAAAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 5 0.22
13 18 0.78
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (13 bp):
TATTATGTTAATA
Found at i:36939457 original size:27 final size:28
Alignment explanation
Indices: 36939412--36939472 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
36939402 TTGTGTGAGA
36939412 TTTTTTGTTGTTGATGGATCT-AGTTTT
1 TTTTTTGTTGTTGATGGATCTGAGTTTT
* * *
36939439 TTTTTTGTTTTTGCA-GGATTTGTGTTTT
1 TTTTTTGTTGTTG-ATGGATCTGAGTTTT
36939467 TTTTTT
1 TTTTTT
36939473 ATCTGGCTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
27 17 0.59
28 12 0.41
ACGTcount: A:0.08, C:0.03, G:0.20, T:0.69
Consensus pattern (28 bp):
TTTTTTGTTGTTGATGGATCTGAGTTTT
Found at i:36939757 original size:15 final size:14
Alignment explanation
Indices: 36939734--36939830 Score: 72
Period size: 15 Copynumber: 6.6 Consensus size: 14
36939724 TGTTCATCCA
36939734 TTTTTTATTATTTT
1 TTTTTTATTATTTT
*
36939748 TTTATTTATT-TCTT
1 TTT-TTTATTATTTT
* *
36939762 GTCTTT-TTATTTT
1 TTTTTTATTATTTT
* * *
36939775 TTGTTTGTTTTTGTT
1 TTTTTTATTATT-TT
36939790 TTTTTTATTATATTT
1 TTTTTTATTAT-TTT
36939805 TTTTATTACTTATTTT
1 TTTT-TTA-TTATTTT
36939821 TATTTTTATT
1 T-TTTTTATT
36939831 TGAAATAGGT
Statistics
Matches: 65, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
12 2 0.03
13 10 0.15
14 11 0.17
15 24 0.37
16 11 0.17
17 7 0.11
ACGTcount: A:0.13, C:0.03, G:0.04, T:0.79
Consensus pattern (14 bp):
TTTTTTATTATTTT
Found at i:36939782 original size:19 final size:18
Alignment explanation
Indices: 36939745--36939786 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
36939735 TTTTTATTAT
36939745 TTTTTTATTTATTTCTTG
1 TTTTTTATTTATTTCTTG
*
36939763 TCTTTTTATTT-TTTGTTTG
1 T-TTTTTATTTATTT-CTTG
36939782 TTTTT
1 TTTTT
36939787 GTTTTTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.07, C:0.05, G:0.07, T:0.81
Consensus pattern (18 bp):
TTTTTTATTTATTTCTTG
Found at i:36941153 original size:16 final size:16
Alignment explanation
Indices: 36941132--36941163 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
36941122 TTAATTGATA
36941132 TTATTACTGCATGCTG
1 TTATTACTGCATGCTG
*
36941148 TTATTATTGCATGCTG
1 TTATTACTGCATGCTG
36941164 CTTGCTTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.47
Consensus pattern (16 bp):
TTATTACTGCATGCTG
Found at i:36955820 original size:20 final size:20
Alignment explanation
Indices: 36955795--36955836 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
36955785 TGATGATAAG
36955795 TAGCCATAT-TCGGATTTACC
1 TAGCCATATAT-GGATTTACC
36955815 TAGCCATATATGGATTTACC
1 TAGCCATATATGGATTTACC
36955835 TA
1 TA
36955837 CCAGGCCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (20 bp):
TAGCCATATATGGATTTACC
Found at i:36961069 original size:24 final size:24
Alignment explanation
Indices: 36961042--36961087 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
36961032 TAATCTGTTA
*
36961042 AAAATATTTTGTAGATAAAGTTGC
1 AAAATATCTTGTAGATAAAGTTGC
36961066 AAAATATCTTGTAGATAAAGTT
1 AAAATATCTTGTAGATAAAGTT
36961088 TTGACTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.37
Consensus pattern (24 bp):
AAAATATCTTGTAGATAAAGTTGC
Found at i:36962213 original size:227 final size:227
Alignment explanation
Indices: 36961818--36963405 Score: 3176
Period size: 227 Copynumber: 7.0 Consensus size: 227
36961808 TATATGTATN
36961818 TAATTTTAATTTTATGTTATTCCTTTTGATTTGGTTATTATTTATTAGTTTTTATATTTTTTTGT
1 TAATTTTAATTTTATGTTATTCCTTTTGATTTGGTTATTATTTATTAGTTTTTATATTTTTTTGT
36961883 AGGATTAAAAGTAATTGGGCTTAATTTTGGAAAGTAAGGTGTTGAAAGACCTAGAATCTGCTTGC
66 AGGATTAAAAGTAATTGGGCTTAATTTTGGAAAGTAAGGTGTTGAAAGACCTAGAATCTGCTTGC
36961948 ATATGCTTCAGTATTTTGGCCATATCTCGAGTTACAAAACTCCAAATAATGCGATTCTTACACCA
131 ATATGCTTCAGTATTTTGGCCATATCTCGAGTTACAAAACTCCAAATAATGCGATTCTTACACCA
36962013 TGGGAAAGATAAGAGACACAGCTACAACTTTG
196 TGGGAAAGATAAGAGACACAGCTACAACTTTG
36962045 TAATTTTAATTTTATGTTATTCCTTTTGATTTGGTTATTATTTATTAGTTTTTATATTTTTTTGT
1 TAATTTTAATTTTATGTTATTCCTTTTGATTTGGTTATTATTTATTAGTTTTTATATTTTTTTGT
36962110 AGGATTAAAAGTAATTGGGCTTAATTTTGGAAAGTAAGGTGTTGAAAGACCTAGAATCTGCTTGC
66 AGGATTAAAAGTAATTGGGCTTAATTTTGGAAAGTAAGGTGTTGAAAGACCTAGAATCTGCTTGC
36962175 ATATGCTTCAGTATTTTGGCCATATCTCGAGTTACAAAACTCCAAATAATGCGATTCTTACACCA
131 ATATGCTTCAGTATTTTGGCCATATCTCGAGTTACAAAACTCCAAATAATGCGATTCTTACACCA
36962240 TGGGAAAGATAAGAGACACAGCTACAACTTTG
196 TGGGAAAGATAAGAGACACAGCTACAACTTTG
36962272 TAATTTTAATTTTATGTTATTCCTTTTGATTTGGTTATTATTTATTAGTTTTTATATTTTTTTGT
1 TAATTTTAATTTTATGTTATTCCTTTTGATTTGGTTATTATTTATTAGTTTTTATATTTTTTTGT
36962337 AGGATTAAAAGTAATTGGGCTTAATTTTGGAAAGTAAGGTGTTGAAAGACCTAGAATCTGCTTGC
66 AGGATTAAAAGTAATTGGGCTTAATTTTGGAAAGTAAGGTGTTGAAAGACCTAGAATCTGCTTGC
36962402 ATATGCTTCAGTATTTTGGCCATATCTCGAGTTACAAAACTCCAAATAATGCGATTCTTACACCA
131 ATATGCTTCAGTATTTTGGCCATATCTCGAGTTACAAAACTCCAAATAATGCGATTCTTACACCA
36962467 TGGGAAAGATAAGAGACACAGCTACAACTTTG
196 TGGGAAAGATAAGAGACACAGCTACAACTTTG
36962499 TAATTTTAATTTTATGTTATTCCTTTTGATTTGGTTATTATTTATTAGTTTTTATATTTTTTTGT
1 TAATTTTAATTTTATGTTATTCCTTTTGATTTGGTTATTATTTATTAGTTTTTATATTTTTTTGT
36962564 AGGATTAAAAGTAATTGGGCTTAATTTTGGAAAGTAAGGTGTTGAAAGACCTAGAATCTGCTTGC
66 AGGATTAAAAGTAATTGGGCTTAATTTTGGAAAGTAAGGTGTTGAAAGACCTAGAATCTGCTTGC
36962629 ATATGCTTCAGTATTTTGGCCATATCTCGAGTTACAAAACTCCAAATAATGCGATTCTTACACCA
131 ATATGCTTCAGTATTTTGGCCATATCTCGAGTTACAAAACTCCAAATAATGCGATTCTTACACCA
36962694 TGGGAAAGATAAGAGACACAGCTACAACTTTG
196 TGGGAAAGATAAGAGACACAGCTACAACTTTG
36962726 TAATTTTAATTTTATGTTATTCCTTTTGATTTGGTTATTATTTATTAGTTTTTATATTTTTTTGT
1 TAATTTTAATTTTATGTTATTCCTTTTGATTTGGTTATTATTTATTAGTTTTTATATTTTTTTGT
36962791 AGGATTAAAAGTAATTGGGCTTAATTTTGGAAAGTAAGGTGTTGAAAGACCTAGAATCTGCTTGC
66 AGGATTAAAAGTAATTGGGCTTAATTTTGGAAAGTAAGGTGTTGAAAGACCTAGAATCTGCTTGC
36962856 ATATGCTTCAGTATTTTGGCCATATCTCGAGTTACAAAACTCCAAATAATGCGATTCTTACACCA
131 ATATGCTTCAGTATTTTGGCCATATCTCGAGTTACAAAACTCCAAATAATGCGATTCTTACACCA
36962921 TGGGAAAGATAAGAGACACAGCTACAACTTTG
196 TGGGAAAGATAAGAGACACAGCTACAACTTTG
36962953 TAATTTTAATTTTATGTTATTCCTTTTGATTTGGTTATTATTTATTAGTTTTTATATTTTTTTGT
1 TAATTTTAATTTTATGTTATTCCTTTTGATTTGGTTATTATTTATTAGTTTTTATATTTTTTTGT
36963018 AGGATTAAAAGTAATTGGGCTTAATTTTGGAAAGTAAGGTGTTGAAAGACCTAGAATCTGCTTGC
66 AGGATTAAAAGTAATTGGGCTTAATTTTGGAAAGTAAGGTGTTGAAAGACCTAGAATCTGCTTGC
36963083 ATATGCTTCAGTATTTTGGCCATATCTCGAGTTACAAAACTCCAAATAATGCGATTCTTACACCA
131 ATATGCTTCAGTATTTTGGCCATATCTCGAGTTACAAAACTCCAAATAATGCGATTCTTACACCA
36963148 TGGGAAAGATAAGAGACACAGCTACAACTTTG
196 TGGGAAAGATAAGAGACACAGCTACAACTTTG
36963180 TAATTTTAATTTTATGTTATTCCTTTTGATTTGGTTATTATTTATTAGTTTTTATATTTTTTTGT
1 TAATTTTAATTTTATGTTATTCCTTTTGATTTGGTTATTATTTATTAGTTTTTATATTTTTTTGT
36963245 AGGATTAAAAGTAATTGGGCTTAATTTTGGAAAGTAAGGTGTTGAAAGACCTAGAATCTGCTTGC
66 AGGATTAAAAGTAATTGGGCTTAATTTTGGAAAGTAAGGTGTTGAAAGACCTAGAATCTGCTTGC
36963310 ATATGCTTCAGTATTTTGGCCATATCTCGAGTTACAAAACTCCAAATAATGCGATTCTTACACCA
131 ATATGCTTCAGTATTTTGGCCATATCTCGAGTTACAAAACTCCAAATAATGCGATTCTTACACCA
36963375 TGGGAAAGATAAGAGACACAGCTACAACTTT
196 TGGGAAAGATAAGAGACACAGCTACAACTTT
36963406 TATGGAGATC
Statistics
Matches: 1361, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
227 1361 1.00
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.40
Consensus pattern (227 bp):
TAATTTTAATTTTATGTTATTCCTTTTGATTTGGTTATTATTTATTAGTTTTTATATTTTTTTGT
AGGATTAAAAGTAATTGGGCTTAATTTTGGAAAGTAAGGTGTTGAAAGACCTAGAATCTGCTTGC
ATATGCTTCAGTATTTTGGCCATATCTCGAGTTACAAAACTCCAAATAATGCGATTCTTACACCA
TGGGAAAGATAAGAGACACAGCTACAACTTTG
Found at i:36967503 original size:19 final size:19
Alignment explanation
Indices: 36967479--36967516 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
36967469 ACTTCTAAAC
36967479 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
*
36967498 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
36967517 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:36968718 original size:34 final size:33
Alignment explanation
Indices: 36968666--36968751 Score: 104
Period size: 33 Copynumber: 2.5 Consensus size: 33
36968656 AAAGAAATCA
36968666 AAAT-AAAATATATAATATAAAAAATTAT-ATTAAAG
1 AAATGAAAATA-A-AATATAAAAAATTATGA-T-AAG
* *
36968701 AAATGAAAATAAAATATATAAGATTATGATAAG
1 AAATGAAAATAAAATATAAAAAATTATGATAAG
36968734 AAATGAAAATAAAATATA
1 AAATGAAAATAAAATATA
36968752 TGACATTAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
33 21 0.45
34 14 0.30
35 6 0.13
36 6 0.13
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (33 bp):
AAATGAAAATAAAATATAAAAAATTATGATAAG
Found at i:36971245 original size:193 final size:192
Alignment explanation
Indices: 36970859--36971245 Score: 661
Period size: 194 Copynumber: 2.0 Consensus size: 192
36970849 AAATTATATA
*
36970859 TGAGTTCAATTGCAATCCTAGAAAAATAGTTTAGTTCATAATATCTAATAAAAACTTCATCCAAA
1 TGAGTTCAATTGCAATCCTAGAAAAATAGTTTAGCTCATAATATCTAATAAAAACTTCATCCAAA
* *
36970924 GAAAATTAGCCATTAATCCAAGTCAAAGAAAATAAGAAAAACACAAAAGTAGAGAGAGAAAACTA
66 GAAAATTAGCCATTAAGCCAAGTCAAAGAAAATAAAAAAAACACAAAAGTAGAGAGAGAAAACTA
* *
36970989 ATAGTTGAAGCTTTGTGATCTTGATTCTCCCTCCAATTCTCTTACTTTCTTGCTTTGGTTTT
131 ACAGTTGAAGCTTTATGATCTTGATTCTCCCTCCAATTCTCTTACTTTCTTGCTTTGGTTTT
* *
36971051 TGNAGTTCAATTGCAATCCTAGAAAAATAGTTTAGCTCATAATGTCTAATAAAAACATT-GTCCA
1 TG-AGTTCAATTGCAATCCTAGAAAAATAGTTTAGCTCATAATATCTAATAAAAAC-TTCATCCA
36971115 AAGAAAATTAGCCATTAAGCCAAGTCAAAAGAAAATAAAAAAAACACAAAAGTAGAGAGAGAAAA
64 AAGAAAATTAGCCATTAAGCCAAGTC-AAAGAAAATAAAAAAAACACAAAAGTAGAGAGAGAAAA
*
36971180 CTAACAGTTGAAGCTTTATGATCTTGATTCTCCCTCCAATTCTCTTACTTTCTTTCTTT-GTTTT
128 CTAACAGTTGAAGCTTTATGATCTTGATTCTCCCTCCAATTCTCTTACTTTCTTGCTTTGGTTTT
36971244 TG
1 TG
36971246 GCTCTTTTTC
Statistics
Matches: 184, Mismatches: 8, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
192 2 0.01
193 87 0.47
194 95 0.52
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.31
Consensus pattern (192 bp):
TGAGTTCAATTGCAATCCTAGAAAAATAGTTTAGCTCATAATATCTAATAAAAACTTCATCCAAA
GAAAATTAGCCATTAAGCCAAGTCAAAGAAAATAAAAAAAACACAAAAGTAGAGAGAGAAAACTA
ACAGTTGAAGCTTTATGATCTTGATTCTCCCTCCAATTCTCTTACTTTCTTGCTTTGGTTTT
Found at i:36976039 original size:28 final size:27
Alignment explanation
Indices: 36975987--36976040 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
36975977 ATGTCTTGGT
**
36975987 GGTGGAAAATTACAATTTTGTCCCTAG
1 GGTGGAAAATTACAATTTTACCCCTAG
36976014 GGTGGTAAAATTATC-ATTTTACCCCTA
1 GGTGG-AAAATTA-CAATTTTACCCCTA
36976041 TACTCCAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 5 0.22
28 17 0.74
29 1 0.04
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTAG
Found at i:36977389 original size:19 final size:19
Alignment explanation
Indices: 36977367--36977423 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
36977357 CATTAAAAAA
36977367 TATTTTATAATTTAAATAG
1 TATTTTATAATTTAAATAG
** *
36977386 TATTGAATAATTTAAATAT
1 TATTTTATAATTTAAATAG
* *
36977405 TATTATTTTAAGTTAAATA
1 TATT-TTATAATTTAAATA
36977424 TTAATGTATT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 20 0.67
20 10 0.33
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
TATTTTATAATTTAAATAG
Found at i:36977422 original size:20 final size:22
Alignment explanation
Indices: 36977397--36977437 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
36977387 ATTGAATAAT
36977397 TTAAATATT-AT-TATTTTAAG
1 TTAAATATTAATGTATTTTAAG
36977417 TTAAATATTAATGTATTTTAA
1 TTAAATATTAATGTATTTTAA
36977438 TATTTATGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (22 bp):
TTAAATATTAATGTATTTTAAG
Found at i:36977466 original size:29 final size:28
Alignment explanation
Indices: 36977400--36977466 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
36977390 GAATAATTTA
36977400 AATA-TTATT-ATTTTAAGTTAAATATT
1 AATATTTATTAATTTTAAGTTAAATATT
* *
36977426 AATGTATT-TTAATATTTATGTTAAATATT
1 AATAT-TTATTAAT-TTTAAGTTAAATATT
36977455 AATATTTATTAA
1 AATATTTATTAA
36977467 ATCTATATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
26 3 0.09
27 2 0.06
28 6 0.18
29 22 0.67
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (28 bp):
AATATTTATTAATTTTAAGTTAAATATT
Found at i:36984628 original size:23 final size:24
Alignment explanation
Indices: 36984601--36984656 Score: 62
Period size: 23 Copynumber: 2.3 Consensus size: 24
36984591 AAAATAACAT
*
36984601 AATATTTTAATAT-TAATAATT-TA
1 AATATTTAAATATATAA-AATTATA
*
36984624 AATATTAAAATATATAAAATTACTA
1 AATATTTAAATATATAAAATTA-TA
36984649 AATATTTA
1 AATATTTA
36984657 TTTTTACTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 15 0.56
24 3 0.11
25 9 0.33
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (24 bp):
AATATTTAAATATATAAAATTATA
Found at i:36990698 original size:21 final size:21
Alignment explanation
Indices: 36990672--36990713 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
36990662 TCTCATTTCA
36990672 CCCTCAATTTTCACCCCATTT
1 CCCTCAATTTTCACCCCATTT
*
36990693 CCCTCAATTTTCATCCCATTT
1 CCCTCAATTTTCACCCCATTT
36990714 GCCAGAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.40, G:0.00, T:0.40
Consensus pattern (21 bp):
CCCTCAATTTTCACCCCATTT
Found at i:37002746 original size:3 final size:3
Alignment explanation
Indices: 37002738--37002763 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
37002728 TTGTTTTTAA
37002738 TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TC
37002764 CTTGGCTCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:37002892 original size:21 final size:21
Alignment explanation
Indices: 37002866--37002907 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
37002856 TCTCATTTCA
37002866 CCCTCAATTTTCACCCCATTT
1 CCCTCAATTTTCACCCCATTT
*
37002887 CCCTCAATTTTCATCCCATTT
1 CCCTCAATTTTCACCCCATTT
37002908 GCCAGAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.40, G:0.00, T:0.40
Consensus pattern (21 bp):
CCCTCAATTTTCACCCCATTT
Found at i:37007001 original size:136 final size:136
Alignment explanation
Indices: 37006757--37007029 Score: 546
Period size: 136 Copynumber: 2.0 Consensus size: 136
37006747 GGCGCTCCAA
37006757 GCAGTTATGGGCATTGAAGGAATTGATGGACGGAGGACATGGAGTAACCATGTAATGGAAATGGA
1 GCAGTTATGGGCATTGAAGGAATTGATGGACGGAGGACATGGAGTAACCATGTAATGGAAATGGA
37006822 GCAGATATTGGGAATTGAAGCTGCAAGAAAATGCATAATCGATGAGATAGCACAAACTGTGGAAC
66 GCAGATATTGGGAATTGAAGCTGCAAGAAAATGCATAATCGATGAGATAGCACAAACTGTGGAAC
37006887 ATCATG
131 ATCATG
37006893 GCAGTTATGGGCATTGAAGGAATTGATGGACGGAGGACATGGAGTAACCATGTAATGGAAATGGA
1 GCAGTTATGGGCATTGAAGGAATTGATGGACGGAGGACATGGAGTAACCATGTAATGGAAATGGA
37006958 GCAGATATTGGGAATTGAAGCTGCAAGAAAATGCATAATCGATGAGATAGCACAAACTGTGGAAC
66 GCAGATATTGGGAATTGAAGCTGCAAGAAAATGCATAATCGATGAGATAGCACAAACTGTGGAAC
37007023 ATCATG
131 ATCATG
37007029 G
1 G
37007030 AATGACCATA
Statistics
Matches: 137, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
136 137 1.00
ACGTcount: A:0.37, C:0.12, G:0.30, T:0.21
Consensus pattern (136 bp):
GCAGTTATGGGCATTGAAGGAATTGATGGACGGAGGACATGGAGTAACCATGTAATGGAAATGGA
GCAGATATTGGGAATTGAAGCTGCAAGAAAATGCATAATCGATGAGATAGCACAAACTGTGGAAC
ATCATG
Found at i:37019289 original size:15 final size:15
Alignment explanation
Indices: 37019269--37019298 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37019259 ACTGTCTGGC
37019269 CTCTCATCATCATCA
1 CTCTCATCATCATCA
*
37019284 CTCTCATCCTCATCA
1 CTCTCATCATCATCA
37019299 GCATCCAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.43, G:0.00, T:0.33
Consensus pattern (15 bp):
CTCTCATCATCATCA
Found at i:37055402 original size:2 final size:2
Alignment explanation
Indices: 37055395--37055427 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
37055385 ATCTTCTTCT
37055395 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
37055428 TTGAAATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:37060613 original size:16 final size:16
Alignment explanation
Indices: 37060577--37060610 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
37060567 TTTTATAATG
37060577 ATTAAAATTTATTGAT
1 ATTAAAATTTATTGAT
*
37060593 ATTAAACTTTATT-AT
1 ATTAAAATTTATTGAT
37060608 ATT
1 ATT
37060611 TAATAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.53
Consensus pattern (16 bp):
ATTAAAATTTATTGAT
Found at i:37060701 original size:9 final size:9
Alignment explanation
Indices: 37060687--37060713 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
37060677 CATATTTTAA
37060687 TTTAATCAT
1 TTTAATCAT
37060696 TTTAATCAT
1 TTTAATCAT
37060705 TTTAATCAT
1 TTTAATCAT
37060714 AATAATTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (9 bp):
TTTAATCAT
Found at i:37060728 original size:9 final size:9
Alignment explanation
Indices: 37060688--37060743 Score: 51
Period size: 9 Copynumber: 6.3 Consensus size: 9
37060678 ATATTTTAAT
*
37060688 TTAATCATT
1 TTAATCATG
*
37060697 TTAATCATT
1 TTAATCATG
*
37060706 TTAATCATA
1 TTAATCATG
* *
37060715 ATAATTATG
1 TTAATCATG
37060724 TTAATCATG
1 TTAATCATG
*
37060733 -TAATCGTG
1 TTAATCATG
37060741 TTA
1 TTA
37060744 TAAATTGTAT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
8 7 0.18
9 32 0.82
ACGTcount: A:0.36, C:0.09, G:0.07, T:0.48
Consensus pattern (9 bp):
TTAATCATG
Found at i:37061628 original size:21 final size:21
Alignment explanation
Indices: 37061602--37061643 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
37061592 GTTATTCTTT
37061602 GGAGGGAATGAGCTATATGGG
1 GGAGGGAATGAGCTATATGGG
* *
37061623 GGAGGGGATGAGCTGTATGGG
1 GGAGGGAATGAGCTATATGGG
37061644 ACATGAGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.05, G:0.52, T:0.19
Consensus pattern (21 bp):
GGAGGGAATGAGCTATATGGG
Found at i:37064354 original size:11 final size:11
Alignment explanation
Indices: 37064338--37064391 Score: 58
Period size: 11 Copynumber: 4.7 Consensus size: 11
37064328 TTCGGGTTGC
37064338 AAACAGAGAGA
1 AAACAGAGAGA
37064349 AAACAGAG-GA
1 AAACAGAGAGA
37064359 ACTCAACA-AGAGCA
1 A---AACAGAGAG-A
37064373 AAACAGAGAGA
1 AAACAGAGAGA
37064384 AAACAGAG
1 AAACAGAG
37064392 GAATATAAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
10 3 0.08
11 21 0.57
12 6 0.16
13 5 0.14
14 2 0.05
ACGTcount: A:0.59, C:0.15, G:0.24, T:0.02
Consensus pattern (11 bp):
AAACAGAGAGA
Found at i:37074143 original size:25 final size:25
Alignment explanation
Indices: 37074092--37074143 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
37074082 TCATTTTTAT
* *
37074092 ATTTGATATATTGTTATTGGTATAA
1 ATTTGATATATTATTATTGGAATAA
*
37074117 ATTTTATATATTATTATT-GAATCAA
1 ATTTGATATATTATTATTGGAAT-AA
37074142 AT
1 AT
37074144 GTTGTTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 3 0.13
25 20 0.87
ACGTcount: A:0.37, C:0.02, G:0.10, T:0.52
Consensus pattern (25 bp):
ATTTGATATATTATTATTGGAATAA
Found at i:37085964 original size:5 final size:6
Alignment explanation
Indices: 37085950--37085974 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
37085940 ATTCTCAGAA
37085950 TTTTAT TTTTAT TTTTAT TTTTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT T
37085975 CCAAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:37108005 original size:2 final size:2
Alignment explanation
Indices: 37107988--37108029 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
37107978 TCCATTACTC
* *
37107988 AT AT AT AC AT AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37108030 GTACATATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:37108037 original size:12 final size:12
Alignment explanation
Indices: 37107987--37108037 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
37107977 TTCCATTACT
*
37107987 CATATATACATA
1 CATATATATATA
37107999 CATATATATAT-
1 CATATATATATA
37108010 -ATATATATATA
1 CATATATATATA
* *
37108021 TATATATATGTA
1 CATATATATATA
37108033 CATAT
1 CATAT
37108038 TAAATTAGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
10 10 0.29
12 24 0.71
ACGTcount: A:0.47, C:0.08, G:0.02, T:0.43
Consensus pattern (12 bp):
CATATATATATA
Found at i:37115285 original size:48 final size:48
Alignment explanation
Indices: 37115230--37115413 Score: 350
Period size: 48 Copynumber: 3.8 Consensus size: 48
37115220 AACAAATGTC
37115230 TATGACAGCTCTAAATGGCTTTTACTAATACAAGATGAAGCAACTGTA
1 TATGACAGCTCTAAATGGCTTTTACTAATACAAGATGAAGCAACTGTA
37115278 TATGACAGCTCTAAATGGCTTTTACTAATACAAGATGAAGCAACTGTA
1 TATGACAGCTCTAAATGGCTTTTACTAATACAAGATGAAGCAACTGTA
*
37115326 TATGACAGCTCTAAATGGCTTTTACTAATACAAGATGAAGCAAATGTA
1 TATGACAGCTCTAAATGGCTTTTACTAATACAAGATGAAGCAACTGTA
*
37115374 TATGACAGTTCTAAATGGCTTTTACTAATACAAGATGAAG
1 TATGACAGCTCTAAATGGCTTTTACTAATACAAGATGAAG
37115414 TTATTATAGA
Statistics
Matches: 134, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
48 134 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (48 bp):
TATGACAGCTCTAAATGGCTTTTACTAATACAAGATGAAGCAACTGTA
Found at i:37116443 original size:2 final size:2
Alignment explanation
Indices: 37116436--37116465 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
37116426 ACGCGTTAAG
*
37116436 GA GA GA GA GA GA GA GA GA GA GA GA AA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
37116466 ATACATCTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:37125869 original size:23 final size:22
Alignment explanation
Indices: 37125826--37125868 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
37125816 GGGTAAATGA
37125826 TAAAAATACTTTTTATTAAAATT
1 TAAAAATA-TTTTTATTAAAATT
37125849 TAAAAAT-TTTTTAATTAAAA
1 TAAAAATATTTTT-ATTAAAA
37125869 AAAATACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.26
22 7 0.37
23 7 0.37
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
TAAAAATATTTTTATTAAAATT
Found at i:37125985 original size:23 final size:23
Alignment explanation
Indices: 37125959--37126075 Score: 68
Period size: 23 Copynumber: 5.2 Consensus size: 23
37125949 ATAAAATCAA
37125959 AATAACTTTTATTATAATTAAAT
1 AATAACTTTTATTATAATTAAAT
* *
37125982 AAT-A-TTTTCATCA-AAATAAA-
1 AATAACTTTT-ATTATAATTAAAT
* *
37126002 AATATATTTTTATTATAATTTAAT
1 AATA-ACTTTTATTATAATTAAAT
* * *
37126026 AAT-ATTTTGTATTAGAA-GATAAT
1 AATAACTTT-TATTATAATTA-AAT
*
37126049 TA-AACTTTTTATTATAATTAAAT
1 AATAAC-TTTTATTATAATTAAAT
37126072 AATA
1 AATA
37126076 TTTAATATTA
Statistics
Matches: 69, Mismatches: 13, Indels: 23
0.66 0.12 0.22
Matches are distributed among these distances:
20 3 0.04
21 10 0.14
22 13 0.19
23 35 0.51
24 8 0.12
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (23 bp):
AATAACTTTTATTATAATTAAAT
Found at i:37126027 original size:44 final size:44
Alignment explanation
Indices: 37125951--37126078 Score: 143
Period size: 46 Copynumber: 2.9 Consensus size: 44
37125941 TCTGAGCAAT
* *
37125951 AAAATCAAAATAACTTTTATTATAATTAAATAATATTTT-CATC
1 AAAATAAAAATAATTTTTATTATAATTAAATAATATTTTGCATC
* * *
37125994 AAAATAAAAATATATTTTTATTATAATTTAATAATATTTTGTATT
1 AAAATAAAAATA-ATTTTTATTATAATTAAATAATATTTTGCATC
* *
37126039 AGAAGATAATTAA-ACTTTTTATTATAATTAAATAATATTT
1 A-AA-ATAA-AAATAATTTTTATTATAATTAAATAATATTT
37126079 AATATTAAAA
Statistics
Matches: 72, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
43 11 0.15
44 25 0.35
45 3 0.04
46 26 0.36
47 5 0.07
48 2 0.03
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (44 bp):
AAAATAAAAATAATTTTTATTATAATTAAATAATATTTTGCATC
Found at i:37126065 original size:46 final size:44
Alignment explanation
Indices: 37125965--37126094 Score: 152
Period size: 46 Copynumber: 2.9 Consensus size: 44
37125955 TCAAAATAAC
* * * * *
37125965 TTTTATTATAATTAAATAATATTTTCATCAAAATAAAAATATAT
1 TTTTATTATAATTAAATAATATTTTTATTAAAAGATAAATAAAT
* * *
37126009 TTTTATTATAATTTAATAATATTTTGTATTAGAAGATAATTAAACT
1 TTTTATTATAATTAAATAATATTTT-TATTAAAAGATAAATAAA-T
*
37126055 TTTTATTATAATTAAATAATATTTAATATTAAAAGATAAA
1 TTTTATTATAATTAAATAATATTT-TTATTAAAAGATAAA
37126095 ATGTATTCTT
Statistics
Matches: 71, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
44 24 0.34
45 11 0.15
46 36 0.51
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (44 bp):
TTTTATTATAATTAAATAATATTTTTATTAAAAGATAAATAAAT
Found at i:37126085 original size:23 final size:22
Alignment explanation
Indices: 37125965--37126078 Score: 106
Period size: 22 Copynumber: 5.1 Consensus size: 22
37125955 TCAAAATAAC
37125965 TTTTATTATAATTAAATAATAT
1 TTTTATTATAATTAAATAATAT
* * * *
37125987 TTTCATCA-AAATAAAAATATAT
1 TTTTATTATAATTAAATA-ATAT
*
37126009 TTTTATTATAATTTAATAATAT
1 TTTTATTATAATTAAATAATAT
* * *
37126031 TTTGTATTAGAAGATAATTAA-ACT
1 TTT-TATTATAA-TTAAATAATA-T
37126055 TTTTATTATAATTAAATAATAT
1 TTTTATTATAATTAAATAATAT
37126077 TT
1 TT
37126079 AATATTAAAA
Statistics
Matches: 70, Mismatches: 16, Indels: 12
0.71 0.16 0.12
Matches are distributed among these distances:
21 7 0.10
22 32 0.46
23 22 0.31
24 9 0.13
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (22 bp):
TTTTATTATAATTAAATAATAT
Found at i:37128247 original size:31 final size:32
Alignment explanation
Indices: 37128207--37128266 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
37128197 GATTGCACTT
37128207 GAAACCATTTTCA-TTTGCAAATAAAAAAAAA
1 GAAACCATTTTCATTTTGCAAATAAAAAAAAA
*
37128238 GAAATCATTTTCATTTTGCAAATAAAAAA
1 GAAACCATTTTCATTTTGCAAATAAAAAA
37128267 TATATCATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 12 0.44
32 15 0.56
ACGTcount: A:0.52, C:0.12, G:0.07, T:0.30
Consensus pattern (32 bp):
GAAACCATTTTCATTTTGCAAATAAAAAAAAA
Found at i:37128274 original size:29 final size:28
Alignment explanation
Indices: 37128212--37128301 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 28
37128202 CACTTGAAAC
* *
37128212 CATTTTCATTTGCAAATAAAAAAAAAGAAAT
1 CATTTTCATTTGCAAAT---AAAAAATATAT
37128243 CATTTTCATTTTGCAAATAAAAAATATAT
1 CATTTTCA-TTTGCAAATAAAAAATATAT
* * *
37128272 CATATTGATTTGAGAAATAAAAATATATAT
1 CATTTTCATTTG-CAAATAAAAA-ATATAT
37128302 TAGTAAATAA
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
28 4 0.08
29 24 0.47
30 6 0.12
31 8 0.16
32 9 0.18
ACGTcount: A:0.50, C:0.08, G:0.07, T:0.36
Consensus pattern (28 bp):
CATTTTCATTTGCAAATAAAAAATATAT
Found at i:37135546 original size:2 final size:2
Alignment explanation
Indices: 37135539--37135584 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
37135529 TAGTTCNGAA
37135539 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37135581 AT AT
1 AT AT
37135585 TTTAAGTTTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37146851 original size:2 final size:2
Alignment explanation
Indices: 37146831--37146884 Score: 66
Period size: 2 Copynumber: 30.0 Consensus size: 2
37146821 ATTAATTTAT
37146831 TA TA T- TA T- TA TA TA T- TA TA TA TA TA T- TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
37146868 TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA
37146885 AACACATAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
1 6 0.13
2 40 0.87
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:37146853 original size:11 final size:11
Alignment explanation
Indices: 37146831--37146884 Score: 76
Period size: 11 Copynumber: 5.0 Consensus size: 11
37146821 ATTAATTTAT
37146831 TATATTAT-TA
1 TATATTATATA
37146841 TATATTATATA
1 TATATTATATA
37146852 TATATTATATA
1 TATATTATATA
37146863 TAT-TATATATA
1 TATAT-TATATA
*
37146874 TATATAATATA
1 TATATTATATA
37146885 AACACATAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
10 9 0.22
11 30 0.75
12 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TATATTATATA
Found at i:37146855 original size:13 final size:13
Alignment explanation
Indices: 37146827--37146884 Score: 68
Period size: 13 Copynumber: 4.5 Consensus size: 13
37146817 TATAATTAAT
37146827 TTAT-TATAT-TA
1 TTATATATATATA
37146838 TTATATAT-TATA
1 TTATATATATATA
37146850 TATATATTATATATA
1 T-TATA-TATATATA
37146865 TTATATATATATA
1 TTATATATATATA
*
37146878 TAATATA
1 TTATATA
37146885 AACACATAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
11 5 0.12
12 6 0.15
13 18 0.44
14 7 0.17
15 5 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TTATATATATATA
Found at i:37146883 original size:9 final size:8
Alignment explanation
Indices: 37146831--37146884 Score: 66
Period size: 7 Copynumber: 7.5 Consensus size: 8
37146821 ATTAATTTAT
37146831 TATAT-TA
1 TATATATA
37146838 T-TATATA
1 TATATATA
37146845 T-TATATA
1 TATATATA
37146852 TATAT-TA
1 TATATATA
37146859 TATATAT-
1 TATATATA
37146866 TATATATA
1 TATATATA
37146874 TATATA-A
1 TATATATA
37146881 TATA
1 TATA
37146885 AACACATAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
6 3 0.07
7 30 0.70
8 10 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
TATATATA
Found at i:37147419 original size:6 final size:6
Alignment explanation
Indices: 37147408--37147439 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
37147398 GGGAGGGTGA
37147408 CACAAG CACAAG CACAAG CACAAG CACAAG CA
1 CACAAG CACAAG CACAAG CACAAG CACAAG CA
37147440 GCTTTGTGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.34, G:0.16, T:0.00
Consensus pattern (6 bp):
CACAAG
Found at i:37151018 original size:103 final size:103
Alignment explanation
Indices: 37150834--37151041 Score: 353
Period size: 103 Copynumber: 2.0 Consensus size: 103
37150824 GAGATAAGAC
* * * *
37150834 CTTAGGAAATGATAAGAGGAAATTCTACTGCACCGTTGAGGTTTTGAATGATCTATTTGAAACAA
1 CTTAGGAAATGATAAAAGGAAATTCTACTGCACCATTGAGGTTTTGAATGATCTATATAAAACAA
*
37150899 TCCATGTGATTCTCTGTATGGCATAGAGTCAAGTGCTG
66 TCCATGTGATTCTCTGTATAGCATAGAGTCAAGTGCTG
* *
37150937 CTTATGAAATGATAAAAGGAAATTCTACTGCATCATTGAGGTTTTGAATGATCTATATAAAACAA
1 CTTAGGAAATGATAAAAGGAAATTCTACTGCACCATTGAGGTTTTGAATGATCTATATAAAACAA
37151002 TCCATGTGATTCTCTGTATAGCATAGAGTCAAGTGCTG
66 TCCATGTGATTCTCTGTATAGCATAGAGTCAAGTGCTG
37151040 CT
1 CT
37151042 GCTTCCTTGA
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 98 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (103 bp):
CTTAGGAAATGATAAAAGGAAATTCTACTGCACCATTGAGGTTTTGAATGATCTATATAAAACAA
TCCATGTGATTCTCTGTATAGCATAGAGTCAAGTGCTG
Found at i:37151446 original size:39 final size:39
Alignment explanation
Indices: 37151403--37151480 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
37151393 TACCCGCATG
*
37151403 TTCACAACCTCTAGTACAAGATTTCTTTCCAGAAACATA
1 TTCACAACCTCTAGTACAAGATTCCTTTCCAGAAACATA
*
37151442 TTCACAATCTCTAGTACAAGATTCCTTTCCAGAAACATA
1 TTCACAACCTCTAGTACAAGATTCCTTTCCAGAAACATA
37151481 CGGATAGCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.36, C:0.26, G:0.08, T:0.31
Consensus pattern (39 bp):
TTCACAACCTCTAGTACAAGATTCCTTTCCAGAAACATA
Found at i:37167885 original size:3 final size:3
Alignment explanation
Indices: 37167877--37167915 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
37167867 GGAGGCTGTC
*
37167877 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TAT TGT TGT
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT
37167916 CTTTGCGGTC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.03, C:0.00, G:0.31, T:0.67
Consensus pattern (3 bp):
TGT
Found at i:37168129 original size:20 final size:20
Alignment explanation
Indices: 37168104--37168141 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
37168094 GCTGGTCCAG
37168104 AAAATAAA-TAAACAAAAATC
1 AAAATAAATTAAA-AAAAATC
37168124 AAAATAAATTAAAAAAAA
1 AAAATAAATTAAAAAAAA
37168142 AAAGGTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (20 bp):
AAAATAAATTAAAAAAAATC
Found at i:37168346 original size:50 final size:49
Alignment explanation
Indices: 37168287--37168385 Score: 173
Period size: 50 Copynumber: 2.0 Consensus size: 49
37168277 AATAGAACTC
37168287 CTATTTATAAATT-AAATAAATATTTTTAATATTTATAATAAAAATATTT
1 CTATTTATAAATTAAAATAAATA-TTTTAATATTTATAATAAAAATATTT
37168336 NCTATTTATAAATTAAAATAAATATTTTAATATTTATAATAAAAATATTT
1 -CTATTTATAAATTAAAATAAATATTTTAATATTTATAATAAAAATATTT
37168386 TTATGAAAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
50 39 0.81
51 9 0.19
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.47
Consensus pattern (49 bp):
CTATTTATAAATTAAAATAAATATTTTAATATTTATAATAAAAATATTT
Found at i:37168385 original size:23 final size:23
Alignment explanation
Indices: 37168304--37168386 Score: 87
Period size: 23 Copynumber: 3.4 Consensus size: 23
37168294 TAAATTAAAT
37168304 AAATATTTTTAATATTTATAATAA
1 AAATA-TTTTAATATTTATAATAA
**
37168328 AAATA-TTTNCTATTTATAAATTAAAA
1 AAATATTTTAATATTTAT-AA-T--AA
37168354 TAAATATTTTAATATTTATAATAA
1 -AAATATTTTAATATTTATAATAA
37168378 AAATATTTT
1 AAATATTTT
37168387 TATGAAAATC
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
22 10 0.20
23 11 0.22
24 8 0.16
26 3 0.06
27 7 0.14
28 10 0.20
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.48
Consensus pattern (23 bp):
AAATATTTTAATATTTATAATAA
Found at i:37169250 original size:16 final size:16
Alignment explanation
Indices: 37169229--37169265 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
37169219 TCTTTTGAGC
37169229 TTTTTTTTAA-TTTTGT
1 TTTTTTTTAAGTTTT-T
37169245 TTTTTTTTAAGTTTTT
1 TTTTTTTTAAGTTTTT
37169261 TTTTT
1 TTTTT
37169266 AAGTTTCTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.11, C:0.00, G:0.05, T:0.84
Consensus pattern (16 bp):
TTTTTTTTAAGTTTTT
Found at i:37169260 original size:13 final size:13
Alignment explanation
Indices: 37169244--37169271 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
37169234 TTTAATTTTG
37169244 TTTTTTTTTAAGT
1 TTTTTTTTTAAGT
37169257 TTTTTTTTTAAGT
1 TTTTTTTTTAAGT
37169270 TT
1 TT
37169272 CTCAAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (13 bp):
TTTTTTTTTAAGT
Found at i:37171351 original size:30 final size:31
Alignment explanation
Indices: 37171317--37171374 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
37171307 ATAATAATTT
37171317 ATTTGATTTAAAAT-AAAAATATAAAGACTC
1 ATTTGATTTAAAATAAAAAATATAAAGACTC
* *
37171347 ATTTGCTTTAAAATAAAAAATGTAAAGA
1 ATTTGATTTAAAATAAAAAATATAAAGA
37171375 TTTTATTGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 13 0.52
31 12 0.48
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.33
Consensus pattern (31 bp):
ATTTGATTTAAAATAAAAAATATAAAGACTC
Found at i:37179339 original size:27 final size:27
Alignment explanation
Indices: 37179286--37179342 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
37179276 GCAAGTGGGC
*
37179286 CCACTCAAAGCCAGCCACCTTCCAGAT
1 CCACTCAAAGCCAGCCACCTTCAAGAT
*
37179313 CCACTCAGAGCCAGCCACC-TCTAAGAT
1 CCACTCAAAGCCAGCCACCTTC-AAGAT
37179340 CCA
1 CCA
37179343 GGAGAAAGAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
26 2 0.07
27 25 0.93
ACGTcount: A:0.30, C:0.44, G:0.12, T:0.14
Consensus pattern (27 bp):
CCACTCAAAGCCAGCCACCTTCAAGAT
Found at i:37194063 original size:37 final size:37
Alignment explanation
Indices: 37194018--37194108 Score: 164
Period size: 37 Copynumber: 2.5 Consensus size: 37
37194008 GGATGAAAGA
37194018 AACAAGAAAAGCTAGAAAACCAGAGTTTGAGAGAATC
1 AACAAGAAAAGCTAGAAAACCAGAGTTTGAGAGAATC
* *
37194055 AAGAAGAAAAGCTAGAAAACCAGAGTTTGAGAGAATG
1 AACAAGAAAAGCTAGAAAACCAGAGTTTGAGAGAATC
37194092 AACAAGAAAAGCTAGAA
1 AACAAGAAAAGCTAGAA
37194109 CATTGGGAGA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.54, C:0.11, G:0.23, T:0.12
Consensus pattern (37 bp):
AACAAGAAAAGCTAGAAAACCAGAGTTTGAGAGAATC
Found at i:37205879 original size:42 final size:42
Alignment explanation
Indices: 37205832--37205918 Score: 147
Period size: 42 Copynumber: 2.1 Consensus size: 42
37205822 CAATTAATTT
* * *
37205832 CTCTTTGCTTTTCCTCTACTTTGCTGGAAGTGATAGCTTCAA
1 CTCTTTGATATTCCTCTACTTTGCTGGAAATGATAGCTTCAA
37205874 CTCTTTGATATTCCTCTACTTTGCTGGAAATGATAGCTTCAA
1 CTCTTTGATATTCCTCTACTTTGCTGGAAATGATAGCTTCAA
37205916 CTC
1 CTC
37205919 AAGTATGTAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (42 bp):
CTCTTTGATATTCCTCTACTTTGCTGGAAATGATAGCTTCAA
Found at i:37207011 original size:3 final size:3
Alignment explanation
Indices: 37207003--37207034 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
37206993 GCGGTGCTGA
37207003 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TG
1 TGG TGG TGG TGG TGG TGG TGG TGG TGG TGG TG
37207035 ACGGTTGATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.66, T:0.34
Consensus pattern (3 bp):
TGG
Found at i:37212507 original size:73 final size:74
Alignment explanation
Indices: 37212338--37212516 Score: 209
Period size: 73 Copynumber: 2.4 Consensus size: 74
37212328 ATAGACAATT
* * **
37212338 AAAACCTCAACTTTTTCAATCAATAATCAAAAACCCAAAGCAGAATAGTAGGGAAAAACCCCAAA
1 AAAACCTCAACTTTATCAATCAATAATCAAAAACCCAAAGCAGAAAAGTAGCCAAAAACCCCAAA
* *
37212403 CTGGTAATC
66 CAGATAATC
* * * * *
37212412 AAAACCTCAACTTTAACTATCAATAAT-TAAAA-CCAAATCAGAAAAGTAGCCAAAAACCTCAAA
1 AAAACCTCAACTTTATCAATCAATAATCAAAAACCCAAAGCAGAAAAGTAGCCAAAAACCCCAAA
37212475 CCAGATAATC
66 -CAGATAATC
* * *
37212485 AAAATCTCAACTTTGTCAATCAATAACCAAAA
1 AAAACCTCAACTTTATCAATCAATAATCAAAA
37212517 CACAAGTCAA
Statistics
Matches: 86, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
72 26 0.30
73 33 0.38
74 27 0.31
ACGTcount: A:0.50, C:0.23, G:0.07, T:0.20
Consensus pattern (74 bp):
AAAACCTCAACTTTATCAATCAATAATCAAAAACCCAAAGCAGAAAAGTAGCCAAAAACCCCAAA
CAGATAATC
Found at i:37213456 original size:19 final size:19
Alignment explanation
Indices: 37213416--37213453 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
37213406 TTAAAGGAGT
37213416 TTTTATTTTTTATTTTTAA
1 TTTTATTTTTTATTTTTAA
*
37213435 TTTTATTTTATTTTTTTTA
1 TTTTATTTT-TTATTTTTA
37213454 TTTCTTTTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (19 bp):
TTTTATTTTTTATTTTTAA
Found at i:37226535 original size:2 final size:2
Alignment explanation
Indices: 37226530--37226559 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
37226520 TATAAAAGAG
37226530 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37226560 TTGTTGTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37228828 original size:88 final size:88
Alignment explanation
Indices: 37228679--37228852 Score: 321
Period size: 88 Copynumber: 2.0 Consensus size: 88
37228669 AAAATTCTAA
*
37228679 GTTGGGGAGGAAAACAGTGTCAAATGCATCTAGTATTGATTCATCCAAGCCTAGTTTTTCAAAGC
1 GTTGGGGAGGAAAACAGTGTCAAATGCATCTAGAATTGATTCATCCAAGCCTAGTTTTTCAAAGC
*
37228744 AAATGCTAGATATTTCACTTCTT
66 AAATGCTAGATACTTCACTTCTT
*
37228767 GTTGGGGAGGAAAACAGTGTCAAATGCATCTAGAATTGATTCATCCAAGCCTTGTTTTTCAAAGC
1 GTTGGGGAGGAAAACAGTGTCAAATGCATCTAGAATTGATTCATCCAAGCCTAGTTTTTCAAAGC
37228832 AAATGCTAGATACTTCACTTC
66 AAATGCTAGATACTTCACTTC
37228853 CTGTAAAAAA
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 83 1.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.32
Consensus pattern (88 bp):
GTTGGGGAGGAAAACAGTGTCAAATGCATCTAGAATTGATTCATCCAAGCCTAGTTTTTCAAAGC
AAATGCTAGATACTTCACTTCTT
Found at i:37237349 original size:53 final size:54
Alignment explanation
Indices: 37237249--37237375 Score: 215
Period size: 54 Copynumber: 2.4 Consensus size: 54
37237239 ATAAAAATTA
37237249 AAATTTATTTATT-TTAAAATTATGAACATTTTTTGGAGAGTTATTTATTTTTT
1 AAATTTATTTATTATTAAAATTATGAACATTTTTTGGAGAGTTATTTATTTTTT
*
37237302 -ATTTTATTTATTATTAAAANTTATGAACATTTTTTGGAGAGTT-TTTATTTTTT
1 AAATTTATTTATTATTAAAA-TTATGAACATTTTTTGGAGAGTTATTTATTTTTT
37237355 AAATTTATTTATTATTAAAAT
1 AAATTTATTTATTATTAAAAT
37237376 AATAATATCT
Statistics
Matches: 69, Mismatches: 2, Indels: 6
0.90 0.03 0.08
Matches are distributed among these distances:
52 11 0.16
53 17 0.25
54 41 0.59
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (54 bp):
AAATTTATTTATTATTAAAATTATGAACATTTTTTGGAGAGTTATTTATTTTTT
Found at i:37239937 original size:103 final size:103
Alignment explanation
Indices: 37239757--37240068 Score: 554
Period size: 103 Copynumber: 3.0 Consensus size: 103
37239747 TGTCTATGGC
*
37239757 TTTTCTTATATTCCACTCTGCTAAGATCTTTAAGCCATTATCTGGGTT-ACTGAGCTCCCTGAAT
1 TTTTCTTATATTCCACTCTGCTAAGATCTTTGAGCCATTATCT-GGTTCACTGAGCTCCCTGAAT
*
37239821 GTCTATGTATATGTTACTCTTAAAAGAATGGGATATATG
65 GTCTATGTCTATGTTACTCTTAAAAGAATGGGATATATG
*
37239860 TTTTCTTATATTCCACTCTGCTAGGATCTTTGAGCCATTATCTGGTTCACTGAGCTCCCTGAATG
1 TTTTCTTATATTCCACTCTGCTAAGATCTTTGAGCCATTATCTGGTTCACTGAGCTCCCTGAATG
37239925 TCTATGTCTATGTTACTCTTAAAAGAATGGGATATATG
66 TCTATGTCTATGTTACTCTTAAAAGAATGGGATATATG
* * *
37239963 TTTTCTTATATTCCACTCTGCTAAGATCTTTGAGCCATTATCTGGTTCACTGAACTTCCTAAATG
1 TTTTCTTATATTCCACTCTGCTAAGATCTTTGAGCCATTATCTGGTTCACTGAGCTCCCTGAATG
37240028 TCTATGTCTATGTTACTCTTAAAAGAATGGGATATATG
66 TCTATGTCTATGTTACTCTTAAAAGAATGGGATATATG
37240066 TTT
1 TTT
37240069 ATTGATTTCT
Statistics
Matches: 201, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
102 4 0.02
103 197 0.98
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (103 bp):
TTTTCTTATATTCCACTCTGCTAAGATCTTTGAGCCATTATCTGGTTCACTGAGCTCCCTGAATG
TCTATGTCTATGTTACTCTTAAAAGAATGGGATATATG
Found at i:37244215 original size:17 final size:17
Alignment explanation
Indices: 37244172--37244215 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
37244162 TCAAACTAAA
* *
37244172 TAAATAAAATAAAATCC
1 TAAATAAATTAAAATAC
37244189 TAAACT-AATTAAAATAC
1 TAAA-TAAATTAAAATAC
37244206 TAAATAAATT
1 TAAATAAATT
37244216 TTCATATGCG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 1 0.04
17 21 0.91
18 1 0.04
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAATAAATTAAAATAC
Found at i:37249657 original size:17 final size:17
Alignment explanation
Indices: 37249614--37249657 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
37249604 TCAAACTAAA
* *
37249614 TAAATAAAATAAAATCC
1 TAAATAAATTAAAATAC
37249631 TAAACT-AATTAAAATAC
1 TAAA-TAAATTAAAATAC
37249648 TAAATAAATT
1 TAAATAAATT
37249658 TTCATATGCG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 1 0.04
17 21 0.91
18 1 0.04
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAATAAATTAAAATAC
Found at i:37253179 original size:17 final size:17
Alignment explanation
Indices: 37253157--37253190 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
37253147 AGAACTGGCT
37253157 ACAATAATGATTAAACA
1 ACAATAATGATTAAACA
37253174 ACAATAATGATTAAACA
1 ACAATAATGATTAAACA
37253191 TACTTCCTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.12, G:0.06, T:0.24
Consensus pattern (17 bp):
ACAATAATGATTAAACA
Found at i:37259564 original size:9 final size:9
Alignment explanation
Indices: 37259550--37259574 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
37259540 CTAATGCACC
37259550 CCTTGGAGA
1 CCTTGGAGA
37259559 CCTTGGAGA
1 CCTTGGAGA
37259568 CCTTGGA
1 CCTTGGA
37259575 TAACCATCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.24
Consensus pattern (9 bp):
CCTTGGAGA
Found at i:37268690 original size:27 final size:27
Alignment explanation
Indices: 37268643--37268697 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
37268633 AAAGCCGGTG
* *
37268643 CAGCAGCAGCCACCCCGGGGTTAAACC
1 CAGCAGCAGCAACCCCAGGGTTAAACC
* *
37268670 CAGCAGCAGCAACTCCAGGGTTGAACC
1 CAGCAGCAGCAACCCCAGGGTTAAACC
37268697 C
1 C
37268698 CACTGCAGCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.27, C:0.38, G:0.25, T:0.09
Consensus pattern (27 bp):
CAGCAGCAGCAACCCCAGGGTTAAACC
Found at i:37269694 original size:15 final size:15
Alignment explanation
Indices: 37269654--37269694 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
37269644 TTCTCTTCTT
* **
37269654 CTTCCTCTTCCTCCT
1 CTTCCTCTTCTTCAA
37269669 CTTCCTCTTCTTCAA
1 CTTCCTCTTCTTCAA
37269684 CTTCCTCTTCT
1 CTTCCTCTTCT
37269695 ACTTCTTCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.05, C:0.46, G:0.00, T:0.49
Consensus pattern (15 bp):
CTTCCTCTTCTTCAA
Found at i:37269698 original size:12 final size:12
Alignment explanation
Indices: 37269646--37269723 Score: 69
Period size: 12 Copynumber: 7.0 Consensus size: 12
37269636 CTTCTTCGTT
*
37269646 CTCTTCTTCTTC
1 CTCTTCTACTTC
37269658 CTCTTC--C-TC
1 CTCTTCTACTTC
37269667 CTCTTC--C-TC
1 CTCTTCTACTTC
* *
37269676 TTCTTCAACTTC
1 CTCTTCTACTTC
37269688 CTCTTCTACTTC
1 CTCTTCTACTTC
*
37269700 TTCTTCTACTTC
1 CTCTTCTACTTC
*
37269712 CTCTTCAACTTC
1 CTCTTCTACTTC
37269724 TTGTAGCTGC
Statistics
Matches: 57, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
9 16 0.28
10 1 0.02
11 1 0.02
12 39 0.68
ACGTcount: A:0.08, C:0.42, G:0.00, T:0.50
Consensus pattern (12 bp):
CTCTTCTACTTC
Found at i:37269702 original size:15 final size:14
Alignment explanation
Indices: 37269650--37269702 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
37269640 TTCGTTCTCT
37269650 TCTTCTTCCTCTTCC
1 TCTTCTTCCTCTT-C
*
37269665 TCCTCTTCCTCTTC
1 TCTTCTTCCTCTTC
**
37269679 TTCAACTTCCTCTTC
1 -TCTTCTTCCTCTTC
37269694 TACTTCTTC
1 T-CTTCTTC
37269703 TTCTACTTCC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
14 2 0.06
15 29 0.94
ACGTcount: A:0.06, C:0.43, G:0.00, T:0.51
Consensus pattern (14 bp):
TCTTCTTCCTCTTC
Found at i:37269715 original size:24 final size:24
Alignment explanation
Indices: 37269674--37269725 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
37269664 CTCCTCTTCC
*
37269674 TCTTCTTCAACTTCCTCTTCTACT
1 TCTTCTTCAACTTCCTCTTCAACT
*
37269698 TCTTCTTCTACTTCCTCTTCAACT
1 TCTTCTTCAACTTCCTCTTCAACT
37269722 TCTT
1 TCTT
37269726 GTAGCTGCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.12, C:0.37, G:0.00, T:0.52
Consensus pattern (24 bp):
TCTTCTTCAACTTCCTCTTCAACT
Found at i:37280770 original size:23 final size:23
Alignment explanation
Indices: 37280744--37280800 Score: 78
Period size: 23 Copynumber: 2.5 Consensus size: 23
37280734 AGGTTGTAGC
*
37280744 CATGACATGTAACATCTTATAGT
1 CATGACATGTAACATCTTACAGT
* *
37280767 CATGACGTGTAACATCTTGCAGT
1 CATGACATGTAACATCTTACAGT
*
37280790 CATGGCATGTA
1 CATGACATGTA
37280801 GTGTGTAGCA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (23 bp):
CATGACATGTAACATCTTACAGT
Found at i:37280821 original size:30 final size:30
Alignment explanation
Indices: 37280773--37280830 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
37280763 TAGTCATGAC
37280773 GTGTAACATCTTGCAGTCATGGCATGTAGT
1 GTGTAACATCTTGCAGTCATGGCATGTAGT
* * * *
37280803 GTGTAGCATGTTGGAGTCATGGCGTGTA
1 GTGTAACATCTTGCAGTCATGGCATGTA
37280831 ATCTGTTACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.21, C:0.14, G:0.33, T:0.33
Consensus pattern (30 bp):
GTGTAACATCTTGCAGTCATGGCATGTAGT
Found at i:37289847 original size:2 final size:2
Alignment explanation
Indices: 37289836--37289917 Score: 127
Period size: 2 Copynumber: 42.5 Consensus size: 2
37289826 TCAAATGTAA
37289836 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT NA- AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
37289877 A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
37289917 A
1 A
37289918 ATGACACATG
Statistics
Matches: 75, Mismatches: 0, Indels: 10
0.88 0.00 0.12
Matches are distributed among these distances:
1 4 0.05
2 70 0.93
3 1 0.01
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:37290124 original size:18 final size:19
Alignment explanation
Indices: 37290089--37290126 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
37290079 TATAATAATA
37290089 ATTTATTAAATAAAAATTT
1 ATTTATTAAATAAAAATTT
*
37290108 ATTTTTTAAAT-AAAATTT
1 ATTTATTAAATAAAAATTT
37290126 A
1 A
37290127 ATTAAGTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTTATTAAATAAAAATTT
Found at i:37292089 original size:13 final size:13
Alignment explanation
Indices: 37292068--37292107 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
37292058 AGATAATTAT
37292068 TTTTTAATATTTA
1 TTTTTAATATTTA
*
37292081 TTTTAAATA-TTA
1 TTTTTAATATTTA
*
37292093 TTTTTAATATATA
1 TTTTTAATATTTA
37292106 TT
1 TT
37292108 AAAAAATCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTTTAATATTTA
Found at i:37298847 original size:21 final size:21
Alignment explanation
Indices: 37298817--37298875 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
37298807 TTACGAATTC
*
37298817 ATATTT-TTAATTTAAAAAAT
1 ATATTTATTAATTAAAAAAAT
*
37298837 ATATTTATTAAATAAAAAAAT
1 ATATTTATTAATTAAAAAAAT
* * *
37298858 TTATTTATAAATTCAAAA
1 ATATTTATTAATTAAAAA
37298876 TTTATCTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 6 0.19
21 26 0.81
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
ATATTTATTAATTAAAAAAAT
Found at i:37302679 original size:131 final size:131
Alignment explanation
Indices: 37302518--37302782 Score: 355
Period size: 131 Copynumber: 2.1 Consensus size: 131
37302508 TATTATAAAA
* * * *
37302518 TATTAATATTTTATTTA-TAAT-TTAAATATTATTATGATTATTT-TTTAAAATT-ATTTTAT-T
1 TATTTATACTTTAATTATTAATATTAAATGTTATTATGATTATTTATTTAAAATTAATTTTATCT
37302578 TTTAAACATTAATAATGTATAATTTATTTAAAATATTAAAAAT-TGA-TAGTTTAAATATTAATA
66 TTTAAACATTAATAATGTATAATTTATTTAAAATATTAAAAATAT-ATTA-TTTAAATATTAATA
37302641 TTT
129 TTT
** *
37302644 TATTTATACTTTAATTATTAATATTAAATGTTATTATGATTATTTATTTTTATTTAATTTTATCT
1 TATTTATACTTTAATTATTAATATTAAATGTTATTATGATTATTTATTTAAAATTAATTTTATCT
* * * * *
37302709 TTTAAATATTAATAATTTATATTTTATTTATAATATTAATAATATATTATTTAAATATTAATATT
66 TTTAAACATTAATAATGTATAATTTATTTAAAATATTAAAAATATATTATTTAAATATTAATATT
37302774 T
131 T
37302775 TATTTATA
1 TATTTATA
37302783 AAGGAATGAT
Statistics
Matches: 120, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
126 14 0.12
127 4 0.03
128 21 0.17
129 6 0.05
130 7 0.06
131 65 0.54
132 3 0.03
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (131 bp):
TATTTATACTTTAATTATTAATATTAAATGTTATTATGATTATTTATTTAAAATTAATTTTATCT
TTTAAACATTAATAATGTATAATTTATTTAAAATATTAAAAATATATTATTTAAATATTAATATT
T
Found at i:37302733 original size:22 final size:23
Alignment explanation
Indices: 37302709--37302777 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 23
37302699 AATTTTATCT
37302709 TTTAAATATTAATAATTTATATTTTA
1 TTTAAATATTAATAATTTATA---TA
*
37302735 TTTATAATATTAATAATATAT-TA
1 TTTA-AATATTAATAATTTATATA
*
37302758 TTTAAATATTAATATTTTAT
1 TTTAAATATTAATAATTTAT
37302778 TTATAAAGGA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
22 14 0.36
23 6 0.15
26 4 0.10
27 15 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTAAATATTAATAATTTATATA
Found at i:37302814 original size:41 final size:42
Alignment explanation
Indices: 37302727--37302824 Score: 121
Period size: 41 Copynumber: 2.4 Consensus size: 42
37302717 TTAATAATTT
** *
37302727 ATATTTTATTTATAATATTAATAATATATTATTTAAATATTA
1 ATATTTTATTTATAATAGGAATAATATATTATTTAAATATAA
* *
37302769 ATATTTTATTTATAA-AGGAATGAT-TAATTTTTTAAATATAA
1 ATATTTTATTTATAATAGGAATAATAT-ATTATTTAAATATAA
37302810 ATATTTTA-TTATAAT
1 ATATTTTATTTATAAT
37302825 TTAAATTTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
40 7 0.14
41 27 0.55
42 15 0.31
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (42 bp):
ATATTTTATTTATAATAGGAATAATATATTATTTAAATATAA
Done.